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Conserved domains on  [gi|492740531|ref|WP_005942696|]
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MULTISPECIES: sigma-54 dependent transcriptional regulator [Bacteroidales]

Protein Classification

sigma-54-dependent transcriptional regulator( domain architecture ID 11454220)

sigma-54 factor interaction domain-containing protein with a domain similar to that found in the response regulator FleR from Pseudomonas aeruginosa

CATH:  3.40.50.2300
Gene Ontology:  GO:0006355|GO:0005524|GO:0000160|GO:0000156|GO:0003677
PubMed:  8830233|20226724|12618438|10966457
SCOP:  4003632

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-436 4.33e-144

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms];


:

Pssm-ID: 441806 [Multi-domain]  Cd Length: 418  Bit Score: 417.44  E-value: 4.33e-144
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMM 80
Cdd:COG2204    3 ARILVVDDDPDIRRLLKELLERAGYEVETAASGEEALALLRE--EPPDLVLLDLRMPGMDGLELLRELRALDPDLPVILL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKIKAANDTFSKVIYER----RSASFCELNQYIHLVAPTDMTVLIL 156
Cdd:COG2204   81 TGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRRLRRENAEDSgligRSPAMQEVRRLIEKVAPSDATVLIT 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 157 GNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEAQGGTLFMDEVENLSIE 236
Cdd:COG2204  161 GESGTGKELVARAIHRLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTGAVARRIGKFELADGGTLFLDEIGEMPLA 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 237 TQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLEDILPLADFFRE 316
Cdd:COG2204  241 LQAKLLRVLQEREFERVGGNKPIPVDVRVIAATNRDLEELVEEGRFREDLYYRLNVFPIELPPLRERREDIPLLARHFLA 320

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 317 QSCAELRKEVVgFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGNLITPDFL--RLKQTETDApnsakkkkidkclqk 394
Cdd:COG2204  321 RFAAELGKPVK-LSPEALEALLAYDWPGNVRELENVIERAVILADGEVITAEDLpeALEEVEREL--------------- 384

                        410       420       430       440
                 ....*....|....*....|....*....|....*....|..
gi 492740531 395 dekrnieqIKTAISISKGNLTQAAALLGISRPTLYKKMSIHG 436
Cdd:COG2204  385 --------IERALEETGGNVSRAAELLGISRRTLYRKLKKYG 418
 
Name Accession Description Interval E-value
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-436 4.33e-144

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms];


Pssm-ID: 441806 [Multi-domain]  Cd Length: 418  Bit Score: 417.44  E-value: 4.33e-144
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMM 80
Cdd:COG2204    3 ARILVVDDDPDIRRLLKELLERAGYEVETAASGEEALALLRE--EPPDLVLLDLRMPGMDGLELLRELRALDPDLPVILL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKIKAANDTFSKVIYER----RSASFCELNQYIHLVAPTDMTVLIL 156
Cdd:COG2204   81 TGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRRLRRENAEDSgligRSPAMQEVRRLIEKVAPSDATVLIT 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 157 GNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEAQGGTLFMDEVENLSIE 236
Cdd:COG2204  161 GESGTGKELVARAIHRLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTGAVARRIGKFELADGGTLFLDEIGEMPLA 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 237 TQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLEDILPLADFFRE 316
Cdd:COG2204  241 LQAKLLRVLQEREFERVGGNKPIPVDVRVIAATNRDLEELVEEGRFREDLYYRLNVFPIELPPLRERREDIPLLARHFLA 320

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 317 QSCAELRKEVVgFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGNLITPDFL--RLKQTETDApnsakkkkidkclqk 394
Cdd:COG2204  321 RFAAELGKPVK-LSPEALEALLAYDWPGNVRELENVIERAVILADGEVITAEDLpeALEEVEREL--------------- 384

                        410       420       430       440
                 ....*....|....*....|....*....|....*....|..
gi 492740531 395 dekrnieqIKTAISISKGNLTQAAALLGISRPTLYKKMSIHG 436
Cdd:COG2204  385 --------IERALEETGGNVSRAAELLGISRRTLYRKLKKYG 418
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
1-433 3.94e-95

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 293.09  E-value: 3.94e-95
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGSIHedDMVLADLRLPDGESTALLKWMRDNGYMHPFIMM 80
Cdd:PRK10365   6 IDILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQVF--DLVLCDVRMAEMDGIATLKEIKALNPAIPVLIM 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRK-----------IKAANDTFSKVIYErrSASFCELNQYIHLVAPT 149
Cdd:PRK10365  84 TAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKalahthsidaeTPAVTASQFGMVGK--SPAMQHLLSEIALVAPS 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 150 DMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEAQGGTLFMDE 229
Cdd:PRK10365 162 EATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNESLLESELFGHEKGAFTGADKRREGRFVEADGGTLFLDE 241

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 230 VENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLEDILP 309
Cdd:PRK10365 242 IGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQDLYYRLNVVAIEVPSLRQRREDIPL 321

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 310 LADFFREQSCAELRKEVVGFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGNLITPDFLRLKQTETDAPnSAKKKKID 389
Cdd:PRK10365 322 LAGHFLQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLTGEYISERELPLAIASTPIP-LGQSQDIQ 400

                        410       420       430       440
                 ....*....|....*....|....*....|....*....|....
gi 492740531 390 KCLQKDEkrniEQIKTAISISKGNLTQAAALLGISRPTLYKKMS 433
Cdd:PRK10365 401 PLVEVEK----EVILAALEKTGGNKTEAARQLGITRKTLLAKLS 440
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 45-438 2.72e-89

PEP-CTERM-box response regulator transcription factor; Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see SP|Q06065). These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158). [Regulatory functions, DNA interactions]


Pssm-ID: 274348 [Multi-domain]  Cd Length: 445  Bit Score: 278.17  E-value: 2.72e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   45 HEDDMVLADLRLP---DG--ESTALLKWMRDNGYMHPFIMMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAI----- 114
Cdd:TIGR02915  39 HEPAVVTLDLGLPpdaDGasEGLAALQQILAIAPDTKVIVITGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVdrafh 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  115 --------RKIKAANDTFSKVIYERRSASFCELNQYIHLVAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDC 186
Cdd:TIGR02915 119 lytletenRRLQSALGGTALRGLITSSPGMQKICRTIEKIAPSDITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINC 198

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  187 GSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRII 266
Cdd:TIGR02915 199 AAIPENLLESELFGYEKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIV 278

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  267 AATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLEDILPLADFFREQSCAELRKEVVGFDGPAKEMLLGYSWPGNV 346
Cdd:TIGR02915 279 CATNQDLKRMIAEGTFREDLFYRIAEISITIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALRALEAHAWPGNV 358

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  347 RQLKQVVYAAVLICKGNLITPDFLRLkqteTDAPNSAKKKKIDKCLQKDEKRNiEQIKTAISISKGNLTQAAALLGISRP 426
Cdd:TIGR02915 359 RELENKVKRAVIMAEGNQITAEDLGL----DARERAETPLEVNLREVRERAER-EAVRKAIARVDGNIARAAELLGITRP 433

                         410
                  ....*....|..
gi 492740531  427 TLYKKMSIHGIS 438
Cdd:TIGR02915 434 TLYDLMKKHGIK 445
Sigma54_activat pfam00158
Sigma-54 interaction domain;
132-296 2.68e-83

Sigma-54 interaction domain;


Pssm-ID: 425491 [Multi-domain]  Cd Length: 168  Bit Score: 253.09  E-value: 2.68e-83
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  132 RSASFCELNQYIHLVAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATE 211
Cdd:pfam00158   4 ESPAMQEVLEQAKRVAPTDAPVLITGESGTGKELFARAIHQLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTGADS 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  212 EKAGYFLEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFH 291
Cdd:pfam00158  84 DRKGLFELADGGTLFLDEIGELPLELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAATNRDLEEAVAEGRFREDLYYRLN 163


                  ....*
gi 492740531  292 DFTIT 296
Cdd:pfam00158 164 VIPIE 168
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 153-290 5.41e-20

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 86.05  E-value: 5.41e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 153 VLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVkgaftgATEEKAGYFLEAQGGTLFMDEVEN 232
Cdd:cd00009   22 LLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF------LVRLLFELAEKAKPGVLFIDEIDS 95

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 492740531 233 LSIETQRMLLRAMEERSYRPVGGKqdrrmDVRIIAATNEDLFQavaekRFRKDLLYRF 290
Cdd:cd00009   96 LSRGAQNALLRVLETLNDLRIDRE-----NVRVIGATNRPLLG-----DLDRALYDRL 143
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 152-289 7.37e-11

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 60.08  E-value: 7.37e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   152 TVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEA-----QGGTLF 226
Cdd:smart00382   4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALAlarklKPDVLI 83

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 492740531   227 MDEVENLSIETQRMLLRAMEERSyrpVGGKQDRRMDVRIIAATN--EDLFQAVAEKRFRKDLLYR 289
Cdd:smart00382  84 LDEITSLLDAEQEALLLLLEELR---LLLLLKSEKNLTVILTTNdeKDLGPALLRRRFDRRIVLL 145
 
Name Accession Description Interval E-value
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-436 4.33e-144

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms];


Pssm-ID: 441806 [Multi-domain]  Cd Length: 418  Bit Score: 417.44  E-value: 4.33e-144
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMM 80
Cdd:COG2204    3 ARILVVDDDPDIRRLLKELLERAGYEVETAASGEEALALLRE--EPPDLVLLDLRMPGMDGLELLRELRALDPDLPVILL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKIKAANDTFSKVIYER----RSASFCELNQYIHLVAPTDMTVLIL 156
Cdd:COG2204   81 TGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRRLRRENAEDSgligRSPAMQEVRRLIEKVAPSDATVLIT 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 157 GNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEAQGGTLFMDEVENLSIE 236
Cdd:COG2204  161 GESGTGKELVARAIHRLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTGAVARRIGKFELADGGTLFLDEIGEMPLA 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 237 TQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLEDILPLADFFRE 316
Cdd:COG2204  241 LQAKLLRVLQEREFERVGGNKPIPVDVRVIAATNRDLEELVEEGRFREDLYYRLNVFPIELPPLRERREDIPLLARHFLA 320

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 317 QSCAELRKEVVgFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGNLITPDFL--RLKQTETDApnsakkkkidkclqk 394
Cdd:COG2204  321 RFAAELGKPVK-LSPEALEALLAYDWPGNVRELENVIERAVILADGEVITAEDLpeALEEVEREL--------------- 384

                        410       420       430       440
                 ....*....|....*....|....*....|....*....|..
gi 492740531 395 dekrnieqIKTAISISKGNLTQAAALLGISRPTLYKKMSIHG 436
Cdd:COG2204  385 --------IERALEETGGNVSRAAELLGISRRTLYRKLKKYG 418
RocR COG3829
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ...
 102-438 9.19e-120

RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];


Pssm-ID: 443041 [Multi-domain]  Cd Length: 448  Bit Score: 356.39  E-value: 9.19e-120
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 102 LKPLVEDKLLPAIRKIKAANDTFSKVIYErrSASFCELNQYIHLVAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPY 181
Cdd:COG3829  115 LKRLERKLREEELERGLSAKYTFDDIIGK--SPAMKELLELAKRVAKSDSTVLILGESGTGKELFARAIHNASPRRDGPF 192

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 182 IKVDCGSLSKDLAASAFFGHVKGAFTGATEE-KAGYFLEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRR 260
Cdd:COG3829  193 VAVNCAAIPENLLESELFGYEKGAFTGAKKGgKPGLFELADGGTLFLDEIGEMPLSLQAKLLRVLQEKEVRRVGGTKPIP 272

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 261 MDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLEDILPLADFFREQSCAELRKEVVGFDGPAKEMLLGY 340
Cdd:COG3829  273 VDVRIIAATNRDLEEMVEEGRFREDLYYRLNVIPIHIPPLRERKEDIPLLAEHFLEKFNKKYGKNIKGISPEALELLLAY 352

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 341 SWPGNVRQLKQVVYAAVLICKGNLITPDFLRLK-QTETDAPNSAKKKKIDKCLQKDEKRNIEQiktAISISKGNLTQAAA 419
Cdd:COG3829  353 DWPGNVRELENVIERAVVLSEGDVITPEHLPEYlLEEAEAASAAEEGSLKEALEEVEKELIEE---ALEKTGGNKSKAAK 429

                        330
                 ....*....|....*....
gi 492740531 420 LLGISRPTLYKKMSIHGIS 438
Cdd:COG3829  430 ALGISRSTLYRKLKKYGIK 448
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
1-433 3.94e-95

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 293.09  E-value: 3.94e-95
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGSIHedDMVLADLRLPDGESTALLKWMRDNGYMHPFIMM 80
Cdd:PRK10365   6 IDILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQVF--DLVLCDVRMAEMDGIATLKEIKALNPAIPVLIM 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRK-----------IKAANDTFSKVIYErrSASFCELNQYIHLVAPT 149
Cdd:PRK10365  84 TAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKalahthsidaeTPAVTASQFGMVGK--SPAMQHLLSEIALVAPS 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 150 DMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEAQGGTLFMDE 229
Cdd:PRK10365 162 EATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNESLLESELFGHEKGAFTGADKRREGRFVEADGGTLFLDE 241

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 230 VENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLEDILP 309
Cdd:PRK10365 242 IGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQDLYYRLNVVAIEVPSLRQRREDIPL 321

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 310 LADFFREQSCAELRKEVVGFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGNLITPDFLRLKQTETDAPnSAKKKKID 389
Cdd:PRK10365 322 LAGHFLQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLTGEYISERELPLAIASTPIP-LGQSQDIQ 400

                        410       420       430       440
                 ....*....|....*....|....*....|....*....|....
gi 492740531 390 KCLQKDEkrniEQIKTAISISKGNLTQAAALLGISRPTLYKKMS 433
Cdd:PRK10365 401 PLVEVEK----EVILAALEKTGGNKTEAARQLGITRKTLLAKLS 440
AcoR COG3284
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];
146-436 1.12e-94

Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];


Pssm-ID: 442514 [Multi-domain]  Cd Length: 625  Bit Score: 297.58  E-value: 1.12e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 146 VAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEE-KAGYFLEAQGGT 224
Cdd:COG3284  340 LADRDIPVLILGETGTGKELFARAIHAASPRADGPFVAVNCAAIPEELIESELFGYEPGAFTGARRKgRPGKIEQADGGT 419

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 225 LFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNcL 304
Cdd:COG3284  420 LFLDEIGDMPLALQARLLRVLQEREVTPLGGTKPIPVDVRLIAATHRDLRELVAAGRFREDLYYRLNGLTLTLPPLRE-R 498

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 305 EDILPLADFFREQSCAELRkeVVGFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGNLITPDFL--RLKQTETDAPNS 382
Cdd:COG3284  499 EDLPALIEHLLRELAAGRG--PLRLSPEALALLAAYPWPGNVRELRNVLRTALALADGGVITVEDLpdELRAELAAAAPA 576

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....
gi 492740531 383 AKKKKIDkcLQKDEKRNIEQiktAISISKGNLTQAAALLGISRPTLYKKMSIHG 436
Cdd:COG3284  577 AAAPLTS--LEEAERDAILR---ALRACGGNVSAAARALGISRSTLYRKLKRYG 625
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
2-437 3.66e-90

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 280.97  E-value: 3.66e-90
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRgsIHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMT 81
Cdd:PRK11361   6 RILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFA--DIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMT 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  82 NYEEIHSAVHAMKLGAEDFILKP--LVEDKLLPA----IRKIKAANDTFSKVIYER--------RSASFCELNQYIHLVA 147
Cdd:PRK11361  84 AYAEVETAVEALRCGAFDYVIKPfdLDELNLIVQralqLQSMKKEIRHLHQALSTSwqwghiltNSPAMMDICKDTAKIA 163

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 148 PTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEAQGGTLFM 227
Cdd:PRK11361 164 LSQASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESLLESELFGHEKGAFTGAQTLRQGLFERANEGTLLL 243

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 228 DEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLEDI 307
Cdd:PRK11361 244 DEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGTFREDLFYRLNVIHLILPPLRDRREDI 323

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 308 LPLADFFREQSCAELRKEVVGFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGNLITPDFL--RLKQTETDAPNSAKK 385
Cdd:PRK11361 324 SLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWPGNIRELSNVIERAVVMNSGPIIFSEDLppQIRQPVCNAGEVKTA 403

                        410       420       430       440       450
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 492740531 386 KKIDKCLQ---KDEKRNIeqIKTAISISKGNLTQAAALLGISRPTLYKKMSIHGI 437
Cdd:PRK11361 404 PVGERNLKeeiKRVEKRI--IMEVLEQQEGNRTRTALMLGISRRALMYKLQEYGI 456
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 45-438 2.72e-89

PEP-CTERM-box response regulator transcription factor; Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see SP|Q06065). These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158). [Regulatory functions, DNA interactions]


Pssm-ID: 274348 [Multi-domain]  Cd Length: 445  Bit Score: 278.17  E-value: 2.72e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   45 HEDDMVLADLRLP---DG--ESTALLKWMRDNGYMHPFIMMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAI----- 114
Cdd:TIGR02915  39 HEPAVVTLDLGLPpdaDGasEGLAALQQILAIAPDTKVIVITGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVdrafh 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  115 --------RKIKAANDTFSKVIYERRSASFCELNQYIHLVAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDC 186
Cdd:TIGR02915 119 lytletenRRLQSALGGTALRGLITSSPGMQKICRTIEKIAPSDITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINC 198

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  187 GSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRII 266
Cdd:TIGR02915 199 AAIPENLLESELFGYEKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIV 278

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  267 AATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLEDILPLADFFREQSCAELRKEVVGFDGPAKEMLLGYSWPGNV 346
Cdd:TIGR02915 279 CATNQDLKRMIAEGTFREDLFYRIAEISITIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALRALEAHAWPGNV 358

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  347 RQLKQVVYAAVLICKGNLITPDFLRLkqteTDAPNSAKKKKIDKCLQKDEKRNiEQIKTAISISKGNLTQAAALLGISRP 426
Cdd:TIGR02915 359 RELENKVKRAVIMAEGNQITAEDLGL----DARERAETPLEVNLREVRERAER-EAVRKAIARVDGNIARAAELLGITRP 433

                         410
                  ....*....|..
gi 492740531  427 TLYKKMSIHGIS 438
Cdd:TIGR02915 434 TLYDLMKKHGIK 445
Sigma54_activat pfam00158
Sigma-54 interaction domain;
132-296 2.68e-83

Sigma-54 interaction domain;


Pssm-ID: 425491 [Multi-domain]  Cd Length: 168  Bit Score: 253.09  E-value: 2.68e-83
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  132 RSASFCELNQYIHLVAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATE 211
Cdd:pfam00158   4 ESPAMQEVLEQAKRVAPTDAPVLITGESGTGKELFARAIHQLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTGADS 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  212 EKAGYFLEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFH 291
Cdd:pfam00158  84 DRKGLFELADGGTLFLDEIGELPLELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAATNRDLEEAVAEGRFREDLYYRLN 163


                  ....*
gi 492740531  292 DFTIT 296
Cdd:pfam00158 164 VIPIE 168
PRK15115 PRK15115
response regulator GlrR; Provisional
 48-437 6.47e-81

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 256.69  E-value: 6.47e-81
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  48 DMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAI-----RKIKAAND 122
Cdd:PRK15115  51 DLVISDLRMDEMDGMQLFAEIQKVQPGMPVIILTAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAIddaleQSAPATDE 130

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 123 TFSKVIYERrSASFCELNQYIHLVAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHV 202
Cdd:PRK15115 131 RWREAIVTR-SPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQLLESELFGHA 209

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 203 KGAFTGATEEKAGYFLEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRF 282
Cdd:PRK15115 210 RGAFTGAVSNREGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRDLPKAMARGEF 289

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 283 RKDLLYRFHDFTITVPALQNCLEDILPLADFFREQSCAELRKEVVGFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKG 362
Cdd:PRK15115 290 REDLYYRLNVVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQLVNVIEQCVALTSS 369

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 363 NLITPDFLR--LKQTETDAPNSAkkkkidkclqkdEKRN---IEQIKTAISISKGNLTQAAALLGISRPTLYKKMSIHGI 437
Cdd:PRK15115 370 PVISDALVEqaLEGENTALPTFV------------EARNqfeLNYLRKLLQITKGNVTHAARMAGRNRTEFYKLLSRHEL 437
TyrR COG3283
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid ...
 146-382 1.44e-77

Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid transport and metabolism];


Pssm-ID: 442513 [Multi-domain]  Cd Length: 514  Bit Score: 249.72  E-value: 1.44e-77
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 146 VAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEAQGGTL 225
Cdd:COG3283  223 MAMLDAPLLIQGETGTGKELLARACHLASPRGDKPFLALNCAALPDDVAESELFGYAPGAFGNAREGKKGLFEQANGGTV 302

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 226 FMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLE 305
Cdd:COG3283  303 FLDEIGEMSPQLQAKLLRFLQDGTFRRVGEEQEVKVDVRVICATQKDLAELVQEGEFREDLYYRLNVLTLTLPPLRERKS 382

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 492740531 306 DILPLADFFREQSCAELRKEVVGFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGNLITPDFLRLKQTETDAPNS 382
Cdd:COG3283  383 DILPLAEHFVARFSQQLGRPRPRLSPDLVDFLQSYPWPGNVRQLENALYRAVSLLEGDELTPEDLQLPEYAASAGLL 459
PRK05022 PRK05022
nitric oxide reductase transcriptional regulator NorR;
138-430 2.05e-77

nitric oxide reductase transcriptional regulator NorR;


Pssm-ID: 235331 [Multi-domain]  Cd Length: 509  Bit Score: 249.32  E-value: 2.05e-77
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 138 ELNQYIHLVAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYF 217
Cdd:PRK05022 198 QLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESLAESELFGHVKGAFTGAISNRSGKF 277

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 218 LEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITV 297
Cdd:PRK05022 278 ELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRDLREEVRAGRFRADLYHRLSVFPLSV 357

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 298 PALQNCLEDILPLADFFREQSCAELRKEVVGFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGN------LITPDFLR 371
Cdd:PRK05022 358 PPLRERGDDVLLLAGYFLEQNRARLGLRSLRLSPAAQAALLAYDWPGNVRELEHVISRAALLARARgagrivTLEAQHLD 437

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 492740531 372 LKQtETDAPNSAKKKKIDKCLQKDEKRNIEQ-----IKTAISISKGNLTQAAALLGISRPTLYK 430
Cdd:PRK05022 438 LPA-EVALPPPEAAAAPAAVVSQNLREATEAfqrqlIRQALAQHQGNWAAAARALELDRANLHR 500
ntrC TIGR01818
nitrogen regulation protein NR(I); This model represents NtrC, a DNA-binding response ...
 48-432 2.11e-75

nitrogen regulation protein NR(I); This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc. [Central intermediary metabolism, Nitrogen metabolism, Regulatory functions, DNA interactions, Signal transduction, Two-component systems]


Pssm-ID: 273818 [Multi-domain]  Cd Length: 463  Bit Score: 242.72  E-value: 2.11e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   48 DMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTNYEEIHSAVHAMKLGAEDFILKP--------LVEDKLLPAIRKIKA 119
Cdd:TIGR01818  44 DLLITDVRMPGEDGLDLLPQIKKRHPQLPVIVMTAHSDLDTAVAAYQRGAFEYLPKPfdldeavtLVERALAHAQEQVAL 123

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  120 ANDTfsKVIYER-----RSASFCELNQYIHLVAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLA 194
Cdd:TIGR01818 124 PADA--GEAEDSaeligEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPKDLI 201

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  195 ASAFFGHVKGAFTGATEEKAGYFLEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLF 274
Cdd:TIGR01818 202 ESELFGHEKGAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLE 281

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  275 QAVAEKRFRKDLLYRFHDFTITVPALQNCLEDILPLADFFREQSCAELRKEVVGFDGPAKEMLLGYSWPGNVRQLKQVVY 354
Cdd:TIGR01818 282 ALVRQGKFREDLFHRLNVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQLRWPGNVRQLENLCR 361

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  355 AAVLICKGNLITPDF----LRLKQTETDAPNSAKKKKIDKCLQ---KDEKRNIEQ--------------IKTAISISKGN 413
Cdd:TIGR01818 362 WLTVMASGDEVLVSDlpaeLALTGRPASAPDSDGQDSWDEALEawaKQALSRGEQglldralpeferplLEAALQHTRGH 441

                         410
                  ....*....|....*....
gi 492740531  414 LTQAAALLGISRPTLYKKM 432
Cdd:TIGR01818 442 KQEAAALLGWGRNTLTRKL 460
phageshock_pspF TIGR02974
psp operon transcriptional activator PspF; Members of this protein family are PspF, the ...
 132-424 6.41e-73

psp operon transcriptional activator PspF; Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH [Regulatory functions, DNA interactions]


Pssm-ID: 274371 [Multi-domain]  Cd Length: 329  Bit Score: 232.19  E-value: 6.41e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  132 RSASFCELNQYIHLVAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATE 211
Cdd:TIGR02974   4 ESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGHEAGAFTGAQK 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  212 EKAGYFLEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFH 291
Cdd:TIGR02974  84 RHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALAAEGRFRADLLDRLA 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  292 DFTITVPALQNCLEDILPLADFFREQSCAEL-RKEVVGFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGN------- 363
Cdd:TIGR02974 164 FDVITLPPLRERQEDIMLLAEHFAIRMARELgLPLFPGFTPQAREQLLEYHWPGNVRELKNVVERSVYRHGLEeapidei 243

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 492740531  364 ----LITPDFLRLKQTETDAPNS-----AKKKKIDKCLQKDEKR-----NIEQIKTAISISKGNLTQAAALLGIS 424
Cdd:TIGR02974 244 iidpFASPWRPKQAAPAVDEVNStptdlPSPSSIAAAFPLDLKQaqqdyEIELLQQALAEAQFNQRKAAELLGLT 318
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 48-437 2.10e-67

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 222.05  E-value: 2.10e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  48 DMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI---------- 117
Cdd:PRK10923  49 DVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAishyqeqqqp 128

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 118 --KAANDTFSKVIYErrSASFCELNQYIHLVAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAA 195
Cdd:PRK10923 129 rnIQVNGPTTDIIGE--APAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLIE 206

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 196 SAFFGHVKGAFTGATEEKAGYFLEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQ 275
Cdd:PRK10923 207 SELFGHEKGAFTGANTIRQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQ 286

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 276 AVAEKRFRKDLLYRFHDFTITVPALQNCLEDILPLADFFREQSCAELRKEVVGFDGPAKEMLLGYSWPGNVRQLKQVVYA 355
Cdd:PRK10923 287 RVQEGKFREDLFHRLNVIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPETEAALTRLAWPGNVRQLENTCRW 366

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 356 AVLICKGNLITPDFLRLKQTETDAPNSAKKKKIDKCLQ----------KDEKRNI----------EQIKTAISISKGNLT 415
Cdd:PRK10923 367 LTVMAAGQEVLIQDLPGELFESTVPESTSQMQPDSWATllaqwadralRSGHQNLlseaqpelerTLLTTALRHTQGHKQ 446

                        410       420
                 ....*....|....*....|..
gi 492740531 416 QAAALLGISRPTLYKKMSIHGI 437
Cdd:PRK10923 447 EAARLLGWGRNTLTRKLKELGM 468
FhlA COG3604
FhlA-type transcriptional regulator, contains GAF, AAA-type ATPase, and DNA-binding Fis ...
 155-438 2.26e-65

FhlA-type transcriptional regulator, contains GAF, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];


Pssm-ID: 442823 [Multi-domain]  Cd Length: 338  Bit Score: 212.79  E-value: 2.26e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 155 ILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASaffghvkgaftgateekagyfleaqggtlfmdevenls 234
Cdd:COG3604  120 ILGETGTGKELVANAIHELSPRADKPFVKVNCAALPESLLES-------------------------------------- 161

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 235 ietqrmllraMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLEDILPLADFF 314
Cdd:COG3604  162 ----------LQEGEFERVGGDETIKVDVRIIAATNRDLEEEVAEGRFREDLYYRLNVFPIRLPPLRERREDIPLLAEHF 231

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 315 REQSCAELRKEVVGFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGNLITPDFLRLKQTETdapnsakkkkidkcLQK 394
Cdd:COG3604  232 LEKFSRRLGKPILRLSPEALEALMAYPWPGNVRELENVIERAVILAEGGVLDADDLAPGSREA--------------LEE 297

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....
gi 492740531 395 DEKRNIEQiktAISISKGNLTQAAALLGISRPTLYKKMSIHGIS 438
Cdd:COG3604  298 VEREHILE---ALERTGGNIAGAARLLGLTPSTLRSRMKKLGIK 338
nifA TIGR01817
Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein ...
 143-368 7.97e-65

Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms. [Central intermediary metabolism, Nitrogen fixation, Regulatory functions, DNA interactions]


Pssm-ID: 273817 [Multi-domain]  Cd Length: 534  Bit Score: 217.28  E-value: 7.97e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  143 IHLVAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEAQG 222
Cdd:TIGR01817 212 ARVVARSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLESELFGHEKGAFTGAIAQRKGRFELADG 291

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  223 GTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQN 302
Cdd:TIGR01817 292 GTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEAVAKGEFRADLYYRINVVPIFLPPLRE 371

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 492740531  303 CLEDILPLADFFREQSCAElRKEVVGFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGNLITPD 368
Cdd:TIGR01817 372 RREDIPLLAEAFLEKFNRE-NGRPLTITPSAIRVLMSCKWPGNVRELENCLERTATLSRSGTITRS 436
pspF PRK11608
phage shock protein operon transcriptional activator; Provisional
 135-437 7.85e-62

phage shock protein operon transcriptional activator; Provisional


Pssm-ID: 236936 [Multi-domain]  Cd Length: 326  Bit Score: 203.36  E-value: 7.85e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 135 SFCE-LNQYIHLvAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEK 213
Cdd:PRK11608  14 SFLEvLEQVSRL-APLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGHEAGAFTGAQKRH 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 214 AGYFLEAQGGTLFMDEVENLSIETQRMLLRAME----ERsyrpVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYR 289
Cdd:PRK11608  93 PGRFERADGGTLFLDELATAPMLVQEKLLRVIEygelER----VGGSQPLQVNVRLVCATNADLPAMVAEGKFRADLLDR 168

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 290 FHDFTITVPALQNCLEDILPLADFFREQSCAELRKEVV-GFDGPAKEMLLGYSWPGNVRQLKQVVYAAV---------Li 359
Cdd:PRK11608 169 LAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLFpGFTERARETLLNYRWPGNIRELKNVVERSVyrhgtseypL- 247

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 360 ckGNLITPDFLRLKQTETDAPNSAKKK-----KIDKCLQKDEKRNIEQiktAISISKGNLTQAAALLGISRPTLYKKMSI 434
Cdd:PRK11608 248 --DNIIIDPFKRRPAEEAIAVSETTSLptlplDLREWQHQQEKELLQR---SLQQAKFNQKRAAELLGLTYHQLRALLKK 322


                 ...
gi 492740531 435 HGI 437
Cdd:PRK11608 323 HQI 325
PRK15424 PRK15424
propionate catabolism operon regulatory protein PrpR; Provisional
 133-432 8.69e-61

propionate catabolism operon regulatory protein PrpR; Provisional


Pssm-ID: 237963 [Multi-domain]  Cd Length: 538  Bit Score: 206.49  E-value: 8.69e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 133 SASFCELNQYIHLVAPTDMTVLILGNTGTGKEHLANKIHR--------RSLRANKPYIKVDCGSLSKDLAASAFFGHVKG 204
Cdd:PRK15424 225 SPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHReyfarhdaRQGKKSHPFVAVNCGAIAESLLEAELFGYEEG 304

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 205 AFTGATEE-KAGYFLEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFR 283
Cdd:PRK15424 305 AFTGSRRGgRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCDLEEDVRQGRFR 384

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 284 KDLLYRFHDFTITVPALQNCLEDILPLADFFREQSCAEL--------RKEVVgfdgPAKEMLLGYSWPGNVRQLKQVVYA 355
Cdd:PRK15424 385 RDLFYRLSILRLQLPPLRERVADILPLAESFLKQSLAALsapfsaalRQGLQ----QCETLLLHYDWPGNVRELRNLMER 460

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 356 AVLICKGN---LITPDFLRLKQTETDAPNSAKKKKIdkclqkdekRNIEQIKTAISISKGNLTQAAALLGISRPTLYKKM 432
Cdd:PRK15424 461 LALFLSVEptpDLTPQFLQLLLPELARESAKTPAPR---------LLAATLQQALERFNGDKTAAANYLGISRTTLWRRL 531
PRK15429 PRK15429
formate hydrogenlyase transcriptional activator FlhA;
83-439 3.69e-58

formate hydrogenlyase transcriptional activator FlhA;


Pssm-ID: 237965 [Multi-domain]  Cd Length: 686  Bit Score: 202.37  E-value: 3.69e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  83 YEEIHSavhamklgaedfiLKPLVEDKLLPAIRKIKAANDTFSKVIyERRSASFCELNQyIHLVAPTDMTVLILGNTGTG 162
Cdd:PRK15429 347 YQEIHR-------------LKERLVDENLALTEQLNNVDSEFGEII-GRSEAMYSVLKQ-VEMVAQSDSTVLILGETGTG 411

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 163 KEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEAQGGTLFMDEVENLSIETQRMLL 242
Cdd:PRK15429 412 KELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLL 491

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 243 RAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLEDILPLADFFREQSCAEL 322
Cdd:PRK15429 492 RVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLVKAFTFKIARRM 571

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 323 RKEVVGFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGNLITpdfLRLKQTETDAPNSAKKKKIDKCLQKDEK----R 398
Cdd:PRK15429 572 GRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLTRGNVLQ---LSLPDITLPEPETPPAATVVAQEGEDEYqlivR 648

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|.
gi 492740531 399 NIEQIKTAISISKGnltqAAALLGISRPTLYKKMSIHGISK 439
Cdd:PRK15429 649 VLKETNGVVAGPKG----AAQRLGLKRTTLLSRMKRLGIDK 685
PRK10820 PRK10820
transcriptional regulator TyrR;
147-380 9.71e-55

transcriptional regulator TyrR;


Pssm-ID: 236769 [Multi-domain]  Cd Length: 520  Bit Score: 189.90  E-value: 9.71e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 147 APTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEAQGGTLF 226
Cdd:PRK10820 224 AMLDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDDVVESELFGHAPGAYPNALEGKKGFFEQANGGSVL 303

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 227 MDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLED 306
Cdd:PRK10820 304 LDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQKGEFREDLYYRLNVLTLNLPPLRDRPQD 383

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 307 ILPLADFFREQSCAE-------LRKEVVGFdgpakemLLGYSWPGNVRQLKQVVYAAVLICKGNLITPDFLRLKQTETDA 379
Cdd:PRK10820 384 IMPLTELFVARFADEqgvprpkLAADLNTV-------LTRYGWPGNVRQLKNAIYRALTQLEGYELRPQDILLPDYDAAV 456


                 .
gi 492740531 380 P 380
Cdd:PRK10820 457 A 457
PRK11388 PRK11388
DNA-binding transcriptional regulator DhaR; Provisional
 102-437 3.68e-49

DNA-binding transcriptional regulator DhaR; Provisional


Pssm-ID: 183114 [Multi-domain]  Cd Length: 638  Bit Score: 177.18  E-value: 3.68e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 102 LKPLVEDK------LLPAIRKIKA--------ANDTFSKVIYERRsasfcELNQYIHL---VAPTDMTVLILGNTGTGKE 164
Cdd:PRK11388 288 LKPIIEGQgtsfilLLHPVEQMRQlmtsqlgkVSHTFDHMPQDSP-----QMRRLIHFgrqAAKSSFPVLLCGEEGVGKA 362

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 165 HLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGhvkGAFTGATEEKAGYFLEAQGGTLFMDEVENLSIETQRMLL-- 242
Cdd:PRK11388 363 LLAQAIHNESERAAGPYIAVNCQLYPDEALAEEFLG---SDRTDSENGRLSKFELAHGGTLFLEKVEYLSPELQSALLqv 439

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 243 ----RAMEERSYR--PVggkqdrrmDVRIIAATNEDLFQAVAEKRFRKDLLYRFHDFTITVPALQNCLEDILPLADffRE 316
Cdd:PRK11388 440 lktgVITRLDSRRliPV--------DVRVIATTTADLAMLVEQNRFSRQLYYALHAFEITIPPLRMRREDIPALVN--NK 509

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 317 QSCAELRKEV-VGFDGPAKEMLLGYSWPGNVRQLKQVVYAAVLICKGNLIT----PDFLRLKQTETDAPNSAKKKKIDkc 391
Cdd:PRK11388 510 LRSLEKRFSTrLKIDDDALARLVSYRWPGNDFELRSVIENLALSSDNGRIRlsdlPEHLFTEQATDDVSATRLSTSLS-- 587

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*.
gi 492740531 392 LQKDEKRNIEQiktAISISKGNLTQAAALLGISRPTLYKKMSIHGI 437
Cdd:PRK11388 588 LAELEKEAIIN---AAQVCGGRIQEMAALLGIGRTTLWRKMKQHGI 630
RtcR COG4650
Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a ...
 132-349 1.71e-48

Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription, Signal transduction mechanisms];


Pssm-ID: 443688 [Multi-domain]  Cd Length: 534  Bit Score: 173.48  E-value: 1.71e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 132 RSASFCELNQYIHLVA-----PtdmtVLILGNTGTGKEHLANKIH-----RRSLRAnkPYIKVDCGSLSKDLAASAFFGH 201
Cdd:COG4650  189 RNAAFNRLIEQIERVAirsraP----ILLTGPTGAGKSQLARRIYelkkaRHQVSG--RFVEVNCATLRGDGAMSALFGH 262

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 202 VKGAFTGATEEKAGYFLEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGKQDRRMDVRIIAATNEDLFQAVAEKR 281
Cdd:COG4650  263 VKGAFTGAVSDRAGLLRSADGGVLFLDEIGELGLDEQAMLLRAIEEKRFLPVGSDKEVSSDFQLIAGTNRDLRQEVAEGR 342

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 492740531 282 FRKDLLYRFHDFTITVPALQNCLEDILPLADFFREQSCAELrKEVVGFDGPAKEMLLGY------SWPGNVRQL 349
Cdd:COG4650  343 FREDLLARINLWTFRLPGLAERREDIEPNLDYELARFAREQ-GRRVRFNKEARARYLAFatspeaLWSGNFRDL 415
PspF COG1221
Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain ...
 148-350 1.35e-24

Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription, Signal transduction mechanisms];


Pssm-ID: 440834 [Multi-domain]  Cd Length: 835  Bit Score: 106.73  E-value: 1.35e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 148 PTDMTVLILGNTGTGKEHLANKIHR-----RSLRANKPYIKVDCGslskD------LAASAFFGHVKGAFTGATEEKAGY 216
Cdd:COG1221  128 PKGLHTLILGPTGVGKSFFAELMYEyaieiGVLPEDAPFVVFNCA----DyannpqLLMSQLFGYVKGAFTGADKDKEGL 203

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 217 FLEAQGGTLFMDEVENLSIETQRMLLRAMEERSYRPVG-GKQDRRMDVRIIAATNEDLfqavaEKRFRKDLLYRFhDFTI 295
Cdd:COG1221  204 IEKADGGILFLDEVHRLPPEGQEMLFTFMDKGIYRRLGeTEKTRKANVRIIFATTEDP-----ESSLLKTFLRRI-PMVI 277

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 492740531 296 TVPALQN-CLEDILPLAD-FFREQSCA-----ELRKEVVgfdgpakEMLLGYSWPGNVRQLK 350
Cdd:COG1221  278 KLPSLEErSLEERLELIKhFFKEEAKRlnkpiKVSKEVL-------KALLLYDCPGNIGQLK 332
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 153-290 5.41e-20

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 86.05  E-value: 5.41e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 153 VLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVkgaftgATEEKAGYFLEAQGGTLFMDEVEN 232
Cdd:cd00009   22 LLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF------LVRLLFELAEKAKPGVLFIDEIDS 95

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 492740531 233 LSIETQRMLLRAMEERSYRPVGGKqdrrmDVRIIAATNEDLFQavaekRFRKDLLYRF 290
Cdd:cd00009   96 LSRGAQNALLRVLETLNDLRIDRE-----NVRVIGATNRPLLG-----DLDRALYDRL 143
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 5-104 6.05e-18

phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response regulators (PRRs); Two-component systems (TCSs) involving a sensor and a response regulator are used by bacteria to adapt to changing environments. Processes regulated by two-component systems in bacteria include sporulation, pathogenicity, virulence, chemotaxis, and membrane transport. Response regulators (RRs) share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. Response regulators regulate transcription, post-transcription or post-translation, or have functions such as methylesterases, adenylate or diguanylate cyclase, c-di-GMP-specific phosphodiesterases, histidine kinases, serine/threonine protein kinases, and protein phosphatases, depending on their output domains. The function of some output domains are still unknown. TCSs are found in all three domains of life - bacteria, archaea, and eukaryotes, however, the presence and abundance of particular RRs vary between the lineages. Archaea encode very few RRs with DNA-binding output domains; most are stand-alone REC domains. Among eukaryotes, TCSs are found primarily in protozoa, fungi, algae, and green plants. REC domains function as phosphorylation-mediated switches within RRs, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381085 [Multi-domain]  Cd Length: 99  Bit Score: 78.81  E-value: 6.05e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   5 VIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTNYE 84
Cdd:cd00156    2 IVDDDPAIRELLKSLLEREGYEVDTAADGEEALELLRE--ERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAKA 79

                         90       100
                 ....*....|....*....|
gi 492740531  85 EIHSAVHAMKLGAEDFILKP 104
Cdd:cd00156   80 DEEDAVRALELGADDYLVKP 99
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-126 4.17e-17

DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal transduction mechanisms];


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 77.70  E-value: 4.17e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQK-ADFKTM-KAHGLAQAKKMIRgsIHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFI 78
Cdd:COG4565    4 IRVLIVEDDPMVAELLRRYLERlPGFEVVgVASSGEEALALLA--EHRPDLILLDIYLPDGDGLELLRELRARGPDVDVI 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 492740531  79 MMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKIKAANDTFSK 126
Cdd:COG4565   82 VITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRRLLRE 129
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 3-115 6.57e-17

Response regulator receiver domain; This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain.


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 76.04  E-value: 6.57e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531    3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTN 82
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEGYVVAEADDGKEALELLKE--ERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTA 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 492740531   83 YEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIR 115
Cdd:pfam00072  79 HGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-117 1.85e-16

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 440508 [Multi-domain]  Cd Length: 204  Bit Score: 77.69  E-value: 1.85e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMM 80
Cdd:COG0745    2 PRILVVEDDPDIRELLADALEREGYEVDTAADGEEALELLEE--ERPDLILLDLMLPGMDGLEVCRRLRARPSDIPIIML 79

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:COG0745   80 TARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRAL 116
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 1-114 4.89e-16

Two-component response regulator, PleD family, consists of two REC domains and a diguanylate cyclase (GGDEF) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 442920 [Multi-domain]  Cd Length: 179  Bit Score: 75.72  E-value: 4.89e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMH--PFI 78
Cdd:COG3706    2 ARILVVDDDPTNRKLLRRLLEAAGYEVVEAADGEEALELLQE--HRPDLILLDLEMPDMDGLELCRRLRADPRTAdiPII 79

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 492740531  79 MMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAI 114
Cdd:COG3706   80 FLTALDDEEDRARALEAGADDYLTKPFDPEELLARV 115
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 3-116 3.17e-15

DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443623 [Multi-domain]  Cd Length: 196  Bit Score: 73.98  E-value: 3.17e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTmKAHG-----LAQAKKMIRGSiheddmVLADLRLPDGESTALLKWMRDNGYMHPF 77
Cdd:COG4566    2 VYIVDDDEAVRDSLAFLLESAGLRV-ETFAsaeafLAALDPDRPGC------LLLDVRMPGMSGLELQEELAARGSPLPV 74

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 492740531  78 IMMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRK 116
Cdd:COG4566   75 IFLTGHGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRR 113
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 3-116 1.24e-14

phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and similar proteins; NtrX is part of the two-component regulatory system NtrY/NtrX that is involved in the activation of nitrogen assimilatory genes such as Gln. It is phosphorylated by the histidine kinase NtrY and interacts with sigma-54. NtrX is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. NtrC family response regulators are sigma54-dependent transcriptional activators. Also included in this subfamily is Aquifex aeolicus NtrC4. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381102 [Multi-domain]  Cd Length: 115  Bit Score: 69.83  E-value: 1.24e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTN 82
Cdd:cd17550    1 ILIVDDEEDIRESLSGILEDEGYEVDTAADGEEALKLIKE--RRPDLVLLDIWLPDMDGLELLKEIKEKYPDLPVIMISG 78

                         90       100       110
                 ....*....|....*....|....*....|....
gi 492740531  83 YEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRK 116
Cdd:cd17550   79 HGTIETAVKATKLGAYDFIEKPLSLDRLLLTIER 112
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 3-116 3.22e-14

phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex aeolicus and similar NtrC family response regulators; NtrC family proteins are transcriptional regulators that have REC, AAA+ ATPase/sigma-54 interaction, and DNA-binding output domains. This subfamily of NtrC proteins include Aquifex aeolicus NtrC1 and Vibrio quorum-sensing signal integrator LuxO. The N-terminal REC domain of NtrC proteins regulate the activity of the protein and its phosphorylation controls the AAA+ domain oligomerization, while the central AAA+ domain participates in nucleotide binding, hydrolysis, oligomerization, and sigma54 interaction. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381114 [Multi-domain]  Cd Length: 121  Bit Score: 68.76  E-value: 3.22e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDN----ILFCDYicslLQKADFKTMKAHGLAQAKKMIRGSihEDDMVLADLRLPDGESTALLKWMRDNGYMHPFI 78
Cdd:cd17572    1 VLLVEDSpslaALYQEY----LSDEGYKVTHVETGKEALAFLSDQ--PPDVVLLDLKLPDMSGMEILKWIQERSLPTSVI 74

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 492740531  79 MMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRK 116
Cdd:cd17572   75 VITAHGSVDIAVEAMRLGAYDFLEKPFDADRLRVTVRN 112
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 2-119 4.13e-14

DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443624 [Multi-domain]  Cd Length: 177  Bit Score: 70.33  E-value: 4.13e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRgsIHEDDMVLADLRLPDGESTALLKWMRdngYMHP---FI 78
Cdd:COG4567    6 SLLLVDDDEAFARVLARALERRGFEVTTAASVEEALALLE--QAPPDYAVLDLRLGDGSGLDLIEALR---ERDPdarIV 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 492740531  79 MMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKIKA 119
Cdd:COG4567   81 VLTGYASIATAVEAIKLGADDYLAKPADADDLLAALERAEG 121
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 1-117 5.93e-14

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator Spo0F [Signal transduction mechanisms];


Pssm-ID: 440547 [Multi-domain]  Cd Length: 128  Bit Score: 68.34  E-value: 5.93e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGSIHedDMVLADLRLPDGESTALLKWMRDNGYMH--PFI 78
Cdd:COG0784    6 KRILVVDDNPDNRELLRRLLERLGYEVTTAEDGAEALELLRAGPP--DLILLDINMPGMDGLELLRRIRALPRLPdiPII 83

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 492740531  79 MMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:COG0784   84 ALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRL 122
fixJ PRK09390
response regulator FixJ; Provisional
 50-123 3.98e-13

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 68.11  E-value: 3.98e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 492740531  50 VLADLRLPDGESTALLKWMRDNGYMHPFIMMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRK-IKAANDT 123
Cdd:PRK09390  51 VVTDVRMPGIDGIELLRRLKARGSPLPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERaLAQAPEA 125
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 3-116 4.74e-13

phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and similar proteins; C4-dicarboxylic acid transport protein D (DctD) is part of the two-component regulatory system DctB/DctD, which regulates C4-dicarboxylate transport via regulation of expression of the dctPQM operon and dctA. It is an activator of sigma(54)-RNA polymerase holoenzyme that uses the energy released from ATP hydrolysis to stimulate the isomerization of a closed promoter complex to an open complex capable of initiating transcription. DctD is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381101 [Multi-domain]  Cd Length: 130  Bit Score: 65.97  E-value: 4.74e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIrgSIHEDDMVLADLRLP--DGEstALLKWMRDNGYMHPFIMM 80
Cdd:cd17549    1 VLLVDDDADVREALQQTLELAGFRVRAFADAEEALAAL--SPDFPGVVISDIRMPgmDGL--ELLAQIRELDPDLPVILI 76

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRK 116
Cdd:cd17549   77 TGHGDVPMAVEAMRAGAYDFLEKPFDPERLLDVVRR 112
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 1-150 2.13e-12

DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction mechanisms];


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 66.38  E-value: 2.13e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTM--KAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFI 78
Cdd:COG3279    2 MKILIVDDEPLARERLERLLEKYPDLEVvgEASNGEEALELLEE--HKPDLVFLDIQMPGLDGFELARQLRELDPPPPII 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 492740531  79 MMTNYEEIhsAVHAMKLGAEDFILKPLVEDKLLPAIRKIKAANDTFSKVIYERRSAS--FCELNQYIHLVAPTD 150
Cdd:COG3279   80 FTTAYDEY--ALEAFEVNAVDYLLKPIDEERLAKALEKAKERLEAKAAAEASPEEKDriFVKSGGKLVKIPLDD 151
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 5-104 3.05e-12

phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins are one of the most widespread transcriptional regulators. OmpR family members contain REC and winged helix-turn-helix (wHTH) DNA-binding output effector domain. They are involved in the control of environmental stress tolerance (such as the oxidative, osmotic and acid stress response), motility, virulence, outer membrane biogenesis and other processes. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381116 [Multi-domain]  Cd Length: 99  Bit Score: 62.43  E-value: 3.05e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   5 VIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRgsIHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTNYE 84
Cdd:cd17574    2 VVEDDEEIAELLSDYLEKEGYEVDTAADGEEALELAR--EEQPDLIILDVMLPGMDGFEVCRRLREKGSDIPIIMLTAKD 79

                         90       100
                 ....*....|....*....|
gi 492740531  85 EIHSAVHAMKLGAEDFILKP 104
Cdd:cd17574   80 EEEDKVLGLELGADDYITKP 99
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 1-146 5.39e-12

Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains [Signal transduction mechanisms];


Pssm-ID: 442663 [Multi-domain]  Cd Length: 224  Bit Score: 65.19  E-value: 5.39e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMR-DNGYMH-PFI 78
Cdd:COG3437    7 PTVLIVDDDPENLELLRQLLRTLGYDVVTAESGEEALELLLE--APPDLILLDVRMPGMDGFELLRLLRaDPSTRDiPVI 84

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 492740531  79 MMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLpaiRKIKAANDTFSKVIYERRSASFCELNQYIHLV 146
Cdd:COG3437   85 FLTALADPEDRERALEAGADDYLTKPFDPEELL---ARVRNALELRRLQRELDDLVLYLKLAAPLHDI 149
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 1-104 1.21e-11

phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; Rhodobacter sphaeroides RegA, also called response regulator PrrA, is the DNA binding regulatory protein of a redox-responsive two-component regulatory system RegB/RegA that is involved in transactivating anaerobic expression of the photosynthetic apparatus. It contains a REC domain and a DNA-binding helix-turn-helix output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381111 [Multi-domain]  Cd Length: 112  Bit Score: 61.30  E-value: 1.21e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNgymHP---F 77
Cdd:cd17563    1 KSLLLVDDDEVFAERLARALERRGFEVETAHSVEEALALARE--EKPDYAVLDLRLGGDSGLDLIPPLRAL---QPdarI 75

                         90       100
                 ....*....|....*....|....*..
gi 492740531  78 IMMTNYEEIHSAVHAMKLGAEDFILKP 104
Cdd:cd17563   76 VVLTGYASIATAVEAIKLGADDYLAKP 102
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 2-104 6.21e-11

Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443786 [Multi-domain]  Cd Length: 103  Bit Score: 59.02  E-value: 6.21e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQK-ADFKTM-KAHGLAQAKKMIRGsiHEDDMVLADLRLP--DGesTALLKWMRDNGYMHPF 77
Cdd:COG4753    1 KVLIVDDEPLIREGLKRILEWeAGFEVVgEAENGEEALELLEE--HKPDLVITDINMPgmDG--LELLEAIRELDPDTKI 76

                         90       100
                 ....*....|....*....|....*..
gi 492740531  78 IMMTNYEEIHSAVHAMKLGAEDFILKP 104
Cdd:COG4753   77 IILSGYSDFEYAQEAIKLGADDYLLKP 103
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 152-289 7.37e-11

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 60.08  E-value: 7.37e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   152 TVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASAFFGHVKGAFTGATEEKAGYFLEA-----QGGTLF 226
Cdd:smart00382   4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALAlarklKPDVLI 83

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 492740531   227 MDEVENLSIETQRMLLRAMEERSyrpVGGKQDRRMDVRIIAATN--EDLFQAVAEKRFRKDLLYR 289
Cdd:smart00382  84 LDEITSLLDAEQEALLLLLEELR---LLLLLKSEKNLTVILTTNdeKDLGPALLRRRFDRRIVLL 145
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 3-116 9.33e-11

phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response regulators contain an N-terminal receiver domain (REC) and a C-terminal LuxR family helix-turn-helix (HTH) DNA-binding output domain. The Sinorhizobium meliloti two-component system FixL/FixJ regulates nitrogen fixation in response to oxygen during symbiosis. Under microaerobic conditions, the kinase FixL phosphorylates the response regulator FixJ resulting in the regulation of nitrogen fixation genes such as nifA and fixK. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381092 [Multi-domain]  Cd Length: 116  Bit Score: 58.76  E-value: 9.33e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTmKAHG-----LAQAKKMIRGSIheddmVLaDLRLPDGESTALLKWMRDNGYMHPF 77
Cdd:cd17537    3 VYVVDDDEAVRDSLAFLLRSVGLAV-KTFTsasafLAAAPPDQPGCL-----VL-DVRMPGMSGLELQDELLARGSNIPI 75

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 492740531  78 IMMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRK 116
Cdd:cd17537   76 IFITGHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQ 114
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 3-119 1.04e-10

phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response regulators; This family is composed of uncharacterized response regulators that contain a REC domain and a AraC family helix-turn-helix (HTH) DNA-binding output domain, including Bacillus subtilis uncharacterized transcriptional regulatory protein YesN and Staphylococcus aureus uncharacterized response regulatory protein SAR0214. YesN is a member of the two-component regulatory system YesM/YesN and SAR0214 is a member of the probable two-component regulatory system SAR0215/SAR0214. Also included in this family is the AlgR-like group of LytTR/AlgR family response, which includes Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR and Bacillus subtilis sensory transduction protein LytT, among others. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381091 [Multi-domain]  Cd Length: 121  Bit Score: 58.89  E-value: 1.04e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKadfktmKAHGL---------AQAKKMIRGsiHEDDMVLADLRLP--DG-EstaLLKWMRD 70
Cdd:cd17536    1 VLIVDDEPLIREGLKKLIDW------EELGFevvgeaengEEALELIEE--HKPDIVITDIRMPgmDGlE---LIEKIRE 69

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 492740531  71 NGYMHPFIMMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKIKA 119
Cdd:cd17536   70 LYPDIKIIILSGYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKAKE 118
Sigma54_activ_2 pfam14532
Sigma-54 interaction domain;
132-300 3.28e-10

Sigma-54 interaction domain;


Pssm-ID: 434021 [Multi-domain]  Cd Length: 138  Bit Score: 57.74  E-value: 3.28e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  132 RSASFCELNQYIHLVAPTDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKVDCGSLSKDLAASaffghvkgaftgate 211
Cdd:pfam14532   3 ASAAIQEIKRRLEQAAQSTLPVFLTGEPGSGKEFCARYLHNPSTPWVQPFDIEYLAHAPLELLEQ--------------- 67

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  212 ekagyfleAQGGTLFMDEVENLSIETQRMLLRAMeersyrpvgGKQDRRmDVRIIAATNEDLFQAVAEKRFRKDLLYRFH 291
Cdd:pfam14532  68 --------AKGGTLYLKDIADLSKALQKGLLLLL---------AKAEGY-RVRLVCTSSKDLPQLAAAGLFDEQLYFELS 129


                  ....*....
gi 492740531  292 DFTITVPAL 300
Cdd:pfam14532 130 ALRLHVPPL 138
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 3-115 1.74e-09

phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This subfamily contains various OmpR family response regulators including PmrA, BasR, QseB, tctD, and RssB, which are components of two-component regulatory systems (TCSs). The PmrA/PmrB TCS controls transcription of genes that are involved in lipopolysaccharide modification in the outer membrane of bacteria, increasing bacterial resistance to host-derived antimicrobial peptides. The BasS/BasR TCS functions as an iron- and zinc-sensing transcription regulator. The QseB/QseC TCS activates the flagella regulon by activating transcription of FlhDC. The RssA/RssB TCS regulates swarming behavior in Serratia marcescens. OmpR family DNA-binding response regulators contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381139 [Multi-domain]  Cd Length: 115  Bit Score: 55.18  E-value: 1.74e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTN 82
Cdd:cd17624    1 ILLVEDDALLGDGLKTGLRKAGYAVDWVRTGAEAEAALAS--GPYDLVILDLGLPDGDGLDLLRRWRRQGQSLPVLILTA 78

                         90       100       110
                 ....*....|....*....|....*....|...
gi 492740531  83 YEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIR 115
Cdd:cd17624   79 RDGVDDRVAGLDAGADDYLVKPFALEELLARLR 111
PRK10643 PRK10643
two-component system response regulator PmrA;
1-115 2.10e-09

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 57.35  E-value: 2.10e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGSIHedDMVLADLRLPDGESTALLKWMRDNGYMHPFIMM 80
Cdd:PRK10643   1 MKILIVEDDTLLLQGLILALQTEGYACDCASTAREAEALLESGHY--SLVVLDLGLPDEDGLHLLRRWRQKKYTLPVLIL 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIR 115
Cdd:PRK10643  79 TARDTLEDRVAGLDVGADDYLVKPFALEELHARIR 113
psREC_PRR cd17582
pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response ...
 10-104 5.57e-09

pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response regulators (PRRs), also called APRRs, comprise a core group of clock components that controls the pace of the central oscillator of the circadian clock, an endogenous time-keeping mechanism that enables organisms to adapt to external daily cycles. The coordinated sequential expression of PRR9 (APRR9), PRR7 (APRR7), PRR5 (APRR5), PRR3 (APRR3), and PRR1 (APRR1) results in circadian waves that may be at the basis of the endogenous circadian clock. PRRs contain an N-terminal pseudo receiver (psREC) domain that resembles the receiver domain of a two-component response regulator, but lacks an aspartate residue that accepts a phosphoryl group from the sensor kinase, and a CCT motif at the C-terminus that contains a putative nuclear localization signal. The psREC domain is involved in protein-protein interactions.


Pssm-ID: 381120 [Multi-domain]  Cd Length: 104  Bit Score: 53.56  E-value: 5.57e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  10 ILFCD-------YICSLLQKADFKTMKAHGLAQAKKMIRGSIHEDDMVLADLRLPDGESTALLKW-MRDNGYMH-PFIMM 80
Cdd:cd17582    1 VLLVEnddstrqIVTALLRKCSYEVTAASDGLQAWDVLEDEQNEIDLILTEVDLPVSSGFKLLSYiMRHKICKNiPVIMM 80

                         90       100
                 ....*....|....*....|....
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKP 104
Cdd:cd17582   81 SSQDSVGVVFKCLSKGAADYLVKP 104
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 5-117 1.02e-08

phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a OmpR/PhoB homolog from Thermotoga maritima whose function is not yet known. This subfamily also includes Streptococcus agalactiae transcriptional regulatory protein DltR, part of the DltS/DltR two-component system (TCS), and Pseudomonas aeruginosa transcriptional activator protein PfeR, part of the PfeR/PfeS TCS, which activates expression of the ferric enterobactin receptor. The DltS/DltR TCS regulates the expression of the dlt operon, which comprises four genes (dltA, dltB, dltC, and dltD) that catalyze the incorporation of D-alanine residues into the lipoteichoic acids. Members of this subfamily belong to the OmpR/PhoB family, which comprises of two domains, an N-terminal receiver domain and a C-terminal DNA-binding winged helix-turn-helix effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381140 [Multi-domain]  Cd Length: 115  Bit Score: 52.99  E-value: 1.02e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   5 VIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGSIHedDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTNYE 84
Cdd:cd17625    2 VVEDEKDLSEAITKHLKKEGYTVDVCFDGEEGLEYALSGIY--DLIILDIMLPGMDGLEVLKSLREEGIETPVLLLTALD 79

                         90       100       110
                 ....*....|....*....|....*....|...
gi 492740531  85 EIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:cd17625   80 AVEDRVKGLDLGADDYLPKPFSLAELLARIRAL 112
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 2-116 1.56e-08

phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; Pseudomonas aeruginosa RssB is an orphan atypical response regulator containing a REC domain and a PP2C-type protein phosphatase output domain. Its function is still unknown. Escherichia RssB, which is not included in this subfamily, is a ClpX adaptor protein which alters ClpX specificity by mediating a specific interaction between ClpX and the substrates such as RpoS, an RNA polymerase sigma factor. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381107 [Multi-domain]  Cd Length: 116  Bit Score: 52.59  E-value: 1.56e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMT 81
Cdd:cd17555    2 TILVIDDDEVVRESIAAYLEDSGFQVLQAADGRQGLELFRS--EQPDLVLCDLRMPEMDGLEVLKQITKESPDTPVIVVS 79

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 492740531  82 NYEEIHSAVHAMKLGAEDFILKPLVEDK-LLPAIRK 116
Cdd:cd17555   80 GAGVMSDAVEALRLGAWDYLTKPIEDLAvLEHAVRR 115
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 1-117 2.60e-08

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 54.16  E-value: 2.60e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKA-HGLAQAKKMIRGSIhedDMVLADLRLPDGESTALLKWMRDNGYMHPFIM 79
Cdd:PRK09836   1 MKLLIVEDEKKTGEYLTKGLTEAGFVVDLAdNGLNGYHLAMTGDY---DLIILDIMLPDVNGWDIVRMLRSANKGMPILL 77

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 492740531  80 MTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:PRK09836  78 LTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTL 115
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 3-110 6.13e-08

phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and similar domains; Type-B ARRs (Arabidopsis response regulators) are a class of MYB-type transcription factors that act as major players in the transcriptional activation of cytokinin-responsive genes. They directly regulate the expression of type-A ARR genes and other downstream target genes. Cytokinin is a plant hormone implicated in many growth and development processes including shoot organogenesis, leaf senescence, sink/source relationships, vascular development, lateral bud release, and photomorphogenic development. Cytokinin signaling involves a phosphorelay cascade by histidine kinase receptors (AHKs), histidine phosphotransfer proteins (AHPs) and downstream ARRs. ARRs are divided into two groups, type-A and -B, according to their sequence and domain structure. Type-B ARRs contain a receiver (REC) domain and a large C-terminal extension that has characteristics of an effector or output domain, with a Myb-like DNA binding domain referred to as the GARP domain. The GARP domain is a motif specific to plant transcription factors. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381121 [Multi-domain]  Cd Length: 115  Bit Score: 50.70  E-value: 6.13e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGSIHEDDMVLADLRLPDGESTALLKWMRDNgyMH-PFIMMT 81
Cdd:cd17584    1 VLVVDDDPTCLAILKRMLLRCGYQVTTCTDAEEALSMLRENKDEFDLVITDVHMPDMDGFEFLELIRLE--MDlPVIMMS 78

                         90       100
                 ....*....|....*....|....*....
gi 492740531  82 NYEEIHSAVHAMKLGAEDFILKPLVEDKL 110
Cdd:cd17584   79 ADGSTSTVMKGLAHGACDYLLKPVSIEDL 107
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
2-170 7.22e-08

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 52.88  E-value: 7.22e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGSIhedDMVLADLRLPDGESTALLKWMRDNgYMHPFIMMT 81
Cdd:PRK10955   3 KILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLLDDSI---DLLLLDVMMPKKNGIDTLKELRQT-HQTPVIMLT 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  82 NYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI---------KAANDTFSKVIY--------ERRSASFCelNQYIH 144
Cdd:PRK10955  79 ARGSELDRVLGLELGADDYLPKPFNDRELVARIRAIlrrshwseqQQNNDNGSPTLEvdalslnpGRQEASFD--GQTLE 156

                        170       180       190
                 ....*....|....*....|....*....|
gi 492740531 145 LVApTDMTVLILGNTGTG----KEHLANKI 170
Cdd:PRK10955 157 LTG-TEFTLLYLLAQHLGqvvsREHLSQEV 185
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 3-117 2.01e-07

phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is part of the CpxA/CpxR two-component regulatory system that mediates envelope stress responses that is key for virulence and antibiotic resistance in several Gram negative pathogens. CpxR is a transcription factor/response regulator that controls the expression of numerous genes, including those of the classical porins OmpF and OmpC. It belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381138 [Multi-domain]  Cd Length: 115  Bit Score: 49.23  E-value: 2.01e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGSIHedDMVLADLRLPDGESTALLKWMRDNGYMhPFIMMTN 82
Cdd:cd17623    1 ILLIDDDRELTELLTEYLEMEGFNVRAAHDGEQGLAALLEGSP--DLVVLDVMLPKMNGLDVLKELRKTSQV-PVLMLTA 77

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 492740531  83 YEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:cd17623   78 RGDDIDRILGLELGADDYLPKPFNPRELVARIRAI 112
PRK10336 PRK10336
two-component system response regulator QseB;
1-107 2.04e-07

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 51.43  E-value: 2.04e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGSIHedDMVLADLRLPDGESTALLKWMRDNGYMHPFIMM 80
Cdd:PRK10336   1 MRILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALYSAPY--DAVILDLTLPGMDGRDILREWREKGQREPVLIL 78

                         90       100
                 ....*....|....*....|....*....
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKP--LVE 107
Cdd:PRK10336  79 TARDALAERVEGLRLGADDYLCKPfaLIE 107
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 153-271 3.83e-07

AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400191 [Multi-domain]  Cd Length: 135  Bit Score: 49.21  E-value: 3.83e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  153 VLILGNTGTGK----EHLANKIHRRSLRankpYIkvdcgSLSKDLAASAFFG----------HVKGAFTGATEEkagyfl 218
Cdd:pfam07728   2 VLLVGPPGTGKtelaERLAAALSNRPVF----YV-----QLTRDTTEEDLFGrrnidpggasWVDGPLVRAARE------ 66

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 492740531  219 eaqGGTLFMDEVENLSIETQRMLLRAMEERSYRPVGGK---QDRRMDVRIIAATNE 271
Cdd:pfam07728  67 ---GEIAVLDEINRANPDVLNSLLSLLDERRLLLPDGGelvKAAPDGFRLIATMNP 119
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 3-104 4.79e-07

phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR and similar proteins; Pseudomonas aeruginosa PilR is the response regulator of the PilS/PilR two-component regulatory system (PilSR TCS) that acts in conjunction with sigma-54 to regulate the expression of type 4 pilus (T4P) major subunit PilA. In addition, the PilSR TCS regulates flagellum-dependent swimming motility and pilus-dependent twitching motility. PilR contains an N-terminal REC domain, a central sigma-54 interaction domain, and a C-terminal Fis-type helix-turn-helix DNA-binding domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381153 [Multi-domain]  Cd Length: 100  Bit Score: 47.92  E-value: 4.79e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGSIHedDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTN 82
Cdd:cd19926    1 VLVVDDEPDIRELLEITLGRMGLDVRSARNVKEARELLASEPY--DLCLTDMRLPDGSGLELVQHIQQRLPQTPVAVITA 78

                         90       100
                 ....*....|....*....|..
gi 492740531  83 YEEIHSAVHAMKLGAEDFILKP 104
Cdd:cd19926   79 YGSLDTAIEALKAGAFDFLTKP 100
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-115 6.42e-07

Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding antiterminator (ANTAR) domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 442921 [Multi-domain]  Cd Length: 194  Bit Score: 49.57  E-value: 6.42e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFK-TMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMhPFIM 79
Cdd:COG3707    4 LRVLVVDDEPLRRADLREGLREAGYEvVAEAADGEDAVELVRE--LKPDLVIVDIDMPDRDGLEAARQISEERPA-PVIL 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 492740531  80 MTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIR 115
Cdd:COG3707   81 LTAYSDPELIERALEAGVSAYLVKPLDPEDLLPALE 116
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 2-115 7.02e-07

phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The transcription factor PhoB is a component of the PhoR/PhoB two-component system, a key regulatory protein network that facilitates response to inorganic phosphate (Pi) starvation conditions by turning on the phosphate (pho) regulon whose products are involved in phosphorus uptake and metabolism. PhoB is a member of the OmpR family of DNA-binding response regulators that contains REC and winged helix-turn-helix (wHTH) DNA-binding output effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381133 [Multi-domain]  Cd Length: 118  Bit Score: 48.01  E-value: 7.02e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLK-WMRDNGYMH-PFIM 79
Cdd:cd17618    2 TILIVEDEPAIREMIAFNLERAGFDVVEAEDAESAVNLIVE--PRPDLILLDWMLPGGSGIQFIRrLKRDEMTRDiPIIM 79

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 492740531  80 MTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIR 115
Cdd:cd17618   80 LTARGEEEDKVRGLEAGADDYITKPFSPRELVARIK 115
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 29-110 1.11e-06

phosphoacceptor receiver (REC) domain of citrate family two-component system response regulators; This family includes Lactobacillus paracasei MaeR, Escherichia coli DcuR and DpiA, Klebsiella pneumoniae CitB, as well as Bacillus DctR, MalR, and CitT. These are all response regulators of two-component systems (TCSs) from the citrate family, and are involved in the transcriptional regulation of genes associated with L-malate catabolism (MaeRK), citrate-specific fermentation (DpiAB, CitAB), plasmid inheritance (DpiAB), anaerobic fumarate respiratory system (DcuRS), and malate transport/utilization (MalKR). REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381152 [Multi-domain]  Cd Length: 118  Bit Score: 47.24  E-value: 1.11e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  29 KAHGLAQAKKMIRgsIHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTNYEEIHSAVHAMKLGAEDFILKPLVED 108
Cdd:cd19925   31 TAGTGEEALKLLK--ERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVVTAANDVETVREALRLGVVDYLIKPFTFE 108


                 ..
gi 492740531 109 KL 110
Cdd:cd19925  109 RL 110
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 3-104 1.20e-06

phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is a member of the SenX3-RegX3 two-component system that is involved in phosphate-sensing signal transduction. Phosphorylated RegX3 functions as a transcriptional activator of phoA. It induces transcription in phosphate limiting environment and also controls expression of several critical metabolic enzymes in aerobic condition. RegX3 belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381136 [Multi-domain]  Cd Length: 99  Bit Score: 46.81  E-value: 1.20e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFK-TMKAHGLAQAKKMIRGSIhedDMVLADLRLPDGESTALLKWMRDNGYMhPFIMMT 81
Cdd:cd17621    1 VLVVEDEESFSDPLAYLLRKEGFEvTVATDGPAALAEFDRAGA---DIVLLDLMLPGLSGTEVCRQLRARSNV-PVIMVT 76

                         90       100
                 ....*....|....*....|...
gi 492740531  82 NYEEIHSAVHAMKLGAEDFILKP 104
Cdd:cd17621   77 AKDSEIDKVVGLELGADDYVTKP 99
HTH_8 pfam02954
Bacterial regulatory protein, Fis family;
401-432 1.24e-06

Bacterial regulatory protein, Fis family;


Pssm-ID: 427077 [Multi-domain]  Cd Length: 40  Bit Score: 44.69  E-value: 1.24e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 492740531  401 EQIKTAISISKGNLTQAAALLGISRPTLYKKM 432
Cdd:pfam02954   7 ELIEAALERTGGNKSKAARLLGISRRTLYRKL 38
Fis COG2901
DNA-binding protein Fis (factor for inversion stimulation) [Transcription];
403-437 2.33e-06

DNA-binding protein Fis (factor for inversion stimulation) [Transcription];


Pssm-ID: 442146 [Multi-domain]  Cd Length: 83  Bit Score: 45.19  E-value: 2.33e-06
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 492740531 403 IKTAISISKGNLTQAAALLGISRPTLYKKMSIHGI 437
Cdd:COG2901   48 LETVLEHTRGNQSRAAEMLGINRNTLRKKLKQYGL 82
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 2-115 2.98e-06

phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; Klebsiella pneumoniae RstA (kpRstA) is part of the RstA/RstB two-component regulatory system that may play a regulatory role in virulence. It belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381137 [Multi-domain]  Cd Length: 116  Bit Score: 45.83  E-value: 2.98e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNgYMHPFIMMT 81
Cdd:cd17622    2 RILLVEDDPKLARLIADFLESHGFNVVVEHRGDRALEVIAR--EKPDAVLLDIMLPGIDGLTLCRDLRPK-YQGPILLLT 78

                         90       100       110
                 ....*....|....*....|....*....|....
gi 492740531  82 NYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIR 115
Cdd:cd17622   79 ALDSDIDHILGLELGADDYVVKPVEPAVLLARLR 112
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 2-116 3.15e-06

phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is part of the VirA/VirG two-component system that regulates the expression of virulence (vir) genes. The histidine kinase VirA senses a phenolic wound response signal, undergoes autophosphorylation, and phosphorelays to the VirG response regulator, which induces transcription of the vir regulon. VirG belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381125 [Multi-domain]  Cd Length: 113  Bit Score: 45.90  E-value: 3.15e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKadfKTMKAHGLAQAKKMIRGSIHED-DMVLADLRLPDGESTALLKWMRDNGYMhPFIMM 80
Cdd:cd17594    1 HVLVVDDDAAMRHLLILYLRE---RGFDVTAAADGAEEARLMLHRRvDLVLLDLRLGQESGLDLLRTIRARSDV-PIIII 76

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 492740531  81 TNYEEIHSA-VHAMKLGAEDFILKPLVEDKLLPAIRK 116
Cdd:cd17594   77 SGDRRDEIDrVVGLELGADDYLAKPFGLRELLARVRA 113
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
2-117 3.17e-06

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 48.18  E-value: 3.17e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGSIheDDMVLADLRLPDGESTALLKWMRDNGYMH--PFIM 79
Cdd:PRK10161   4 RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPW--PDLILLDWMLPGGSGIQFIKHLKRESMTRdiPVVM 81

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 492740531  80 MTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:PRK10161  82 LTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAV 119
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 1-117 4.54e-06

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY family proteins; CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY3, Escherichia coli CheY, and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381150 [Multi-domain]  Cd Length: 119  Bit Score: 45.41  E-value: 4.54e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFK--TMKAHGLAQAKKMIRGSIhedDMVLADLRLPDGESTALLKWMRDNGYMH--P 76
Cdd:cd19923    1 MKVLVVDDFSTMRRIIKNLLKELGFNnvEEAEDGVDALEKLKAGGF---DFVITDWNMPNMDGLELLKTIRADGALShlP 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 492740531  77 FIMMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:cd19923   78 VLMVTAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKLEKI 118
REC_HP-RR-like cd17573
phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; ...
 3-114 4.62e-06

phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; Helicobacter pylori response regulator hp1043 (HP-RR) is an orphan response regulator which is phosphorylation-independent and is essential for growth. HP-RR functions as a cell growth-associated regulator in the absence of post-translational modification. Members of this subfamily contain REC and DNA-binding output domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381115 [Multi-domain]  Cd Length: 110  Bit Score: 45.11  E-value: 4.62e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIrgSIHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTN 82
Cdd:cd17573    1 ILLIEDDSTLGKEISKGLNEKGYQADVAESLKDGEYYI--DIRNYDLVLVSDKLPDGNGLSIVSRIKEKHPSIVVIVLSD 78

                         90       100       110
                 ....*....|....*....|....*....|..
gi 492740531  83 YEEIHSAVHAMKLGAEDFILKPLVEDKLLPAI 114
Cdd:cd17573   79 NPKTEQEIEAFKEGADDYIAKPFDFKVLVARI 110
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 20-104 1.12e-05

phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; DNA-binding transcriptional regulator NtrC is also called nitrogen regulation protein NR(I) or nitrogen regulator I (NRI). It contains an N-terminal receiver (REC) domain, followed by a sigma-54 interaction domain, and a C-terminal helix-turn-helix DNA-binding domain. It is part of the two-component regulatory system NtrB/NtrC, which controls expression of the nitrogen-regulated (ntr) genes in response to nitrogen limitation. DNA-binding response regulator NtrC is phosphorylated by NtrB; phosphorylation of the N-terminal REC domain activates the central sigma-54 interaction domain and leads to the transcriptional activation from promoters that require sigma(54)-containing RNA polymerase. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381146 [Multi-domain]  Cd Length: 116  Bit Score: 44.19  E-value: 1.12e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  20 LQKADFKTMKahgLAQAKKMI-RGSIHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTNYEEIHSAVHAMKLGAE 98
Cdd:cd19919   20 LAGAGLTVTS---FENAQEALaALASSQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVIIMTAHSDLDSAVSAYQGGAF 96


                 ....*.
gi 492740531  99 DFILKP 104
Cdd:cd19919   97 EYLPKP 102
dpiA PRK10046
two-component response regulator DpiA; Provisional
 30-126 1.19e-05

two-component response regulator DpiA; Provisional


Pssm-ID: 182208 [Multi-domain]  Cd Length: 225  Bit Score: 46.16  E-value: 1.19e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  30 AHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTNYEEIHSAVHAMKLGAEDFILKPLVEDK 109
Cdd:PRK10046  36 AGNLAQARMMIER--FKPGLILLDNYLPDGRGINLLHELVQAHYPGDVVFTTAASDMETVSEAVRCGVFDYLIKPIAYER 113

                         90       100
                 ....*....|....*....|...
gi 492740531 110 LLPAI------RKIKAANDTFSK 126
Cdd:PRK10046 114 LGQTLtrfrqrKHMLESIDSASQ 136
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 42-117 1.33e-05

phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is part of the CckA-ChpT-CtrA phosphorelay that is conserved in alphaproteobacteria and is important in orchestrating the cell cycle, polar development, and flagellar biogenesis. CtrA is the master regulator of flagella synthesis genes and also regulates genes involved in the cell cycle, exopolysaccharide synthesis, and cyclic-di-GMP signaling. CtrA is active as a transcription factor when phosphorylated. It is a member of the OmpR family of DNA-binding response regulators, characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381132 [Multi-domain]  Cd Length: 114  Bit Score: 43.94  E-value: 1.33e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 492740531  42 GSIHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:cd17616   38 GKLYDYDIILLDLNLPDMSGYEVLRTLRLAKVKTPILILSGLADIEDKVKGLGFGADDYMTKPFHKDELVARIHAI 113
PRK10816 PRK10816
two-component system response regulator PhoP;
1-104 1.41e-05

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 45.89  E-value: 1.41e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMM 80
Cdd:PRK10816   1 MRVLVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEADYYLNE--HLPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVL 78

                         90       100
                 ....*....|....*....|....
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKP 104
Cdd:PRK10816  79 TARESWQDKVEVLSAGADDYVTKP 102
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 3-117 1.45e-05

phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase/response regulators; Typically, two-component regulatory systems (TCSs) consist of a sensor (histidine kinase) that responds to specific input(s) by modifying the output of a cognate response regulator (RR). TCSs allow organisms to sense and respond to changes in environmental conditions. Hybrid sensor histidine kinase/response regulators contain all the elements of a classical TCS in a single polypeptide chain. RRs share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381128 [Multi-domain]  Cd Length: 118  Bit Score: 44.24  E-value: 1.45e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMH--PFIMM 80
Cdd:cd17598    1 ILIVEDSPTQAEQLKHILEEQGYKVQVARNGREALAMLAE--HRPTLVISDIVMPEMDGYELCRKIKSDPDLKdiPVILL 78

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:cd17598   79 TTLSDPRDVIRGLECGADNFITKPYDEKYLLSRIKYI 115
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 2-116 1.50e-05

phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone response regulator containing only a REC domain with no output/effector domain, controls sporulation in Bacillus subtilis through the exchange of a phosphoryl group. Bacillus subtilis forms spores when conditions for growth become unfavorable. The initiation of sporulation is controlled by a phosphorelay (an expanded version of the two-component system) that consists of four main components: a histidine kinase (KinA), a secondary messenger (Spo0F), a phosphotransferase (Spo0B), and a transcription factor (Spo0A). REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381105 [Multi-domain]  Cd Length: 117  Bit Score: 44.08  E-value: 1.50e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMT 81
Cdd:cd17553    2 KILIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIVTK--ERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIMT 79

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 492740531  82 NYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRK 116
Cdd:cd17553   80 AYGELDMIQESKELGALTHFAKPFDIDEIRDAVKK 114
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 7-116 1.66e-05

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar domains; This family is composed of mostly uncharacterized response regulators with similarity to the REC domains of response regulator components of two-component systems that regulates hydrogenase activity, including HupR and HoxA. HupR is part of the HupT/HupR system that controls the synthesis of the membrane-bound [NiFe]hydrogenase, HupSL, of the photosynthetic bacterium Rhodobacter capsulatus. It contains an N-terminal REC domain, a central sigma-54 interaction domain that lacks ATPase activity, and a C-terminal DNA-binding domain. Members of this family contain a REC domain and various output domains including the cyclase homology domain (CHD) and the c-di-GMP phosphodiesterase domains, HD-GYP and EAL. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381113 [Multi-domain]  Cd Length: 118  Bit Score: 43.93  E-value: 1.66e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   7 EDNILfcDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDngyMHPF---IMMTNY 83
Cdd:cd17569    9 EPNIL--KALKRLLRREGYEVLTATSGEEALEILKQ--EPVDVVISDQRMPGMDGAELLKRVRE---RYPDtvrILLTGY 81

                         90       100       110
                 ....*....|....*....|....*....|....
gi 492740531  84 EEIHSAVHAMKLGAED-FILKPLVEDKLLPAIRK 116
Cdd:cd17569   82 ADLDAAIEAINEGEIYrFLTKPWDDEELKETIRQ 115
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 2-104 3.20e-05

first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar domains; PleD contains a REC domain (D1) with the phosphorylatable aspartate, a REC-like adaptor domain (D2), and the enzymatic diguanylate cyclase (DGC) domain, also called the GGDEF domain according to a conserved sequence motif, as its output domain. The GGDEF-containing PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes D1 of PleD and similar domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381093 [Multi-domain]  Cd Length: 104  Bit Score: 42.87  E-value: 3.20e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKADFKTMKAH----GLAQAKKmirgsiHEDDMVLADLRLP--DG-ESTALLKwmRDNGYM 74
Cdd:cd17538    1 KILVVDDEPANRELLEALLSAEGYEVLTADsgqeALALAEE------ELPDLILLDVMMPgmDGfEVCRRLK--EDPETR 72

                         90       100       110
                 ....*....|....*....|....*....|.
gi 492740531  75 H-PFIMMTNYEEIHSAVHAMKLGAEDFILKP 104
Cdd:cd17538   73 HiPVIMITALDDREDRIRGLEAGADDFLSKP 103
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 3-114 4.11e-05

phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators similar to Arabidopsis thaliana CKI1 and Escherichia coli RcsC; This family is composed of hybrid sensor histidine kinases/response regulators that are sensor histidine kinases (HKs) fused with a REC domain, similar to the sensor histidine kinase CKI1 from Arabidopsis thaliana, which is involved in multi-step phosphorelay (MSP) signaling that mediates responses to a variety of important stimuli in plants. MSP involves a signal being transferred from HKs via histidine phosphotransfer proteins (AHP1-AHP5) to nuclear response regulators. The CKI1 REC domain specifically interacts with the downstream signaling protein AHP2, AHP3 and AHP5. The plant MSP system has evolved from the prokaryotic two-component system (TCS), which allows organisms to sense and respond to changes in environmental conditions. This family also includes bacterial hybrid sensor HKs such as Escherichia coli RcsC, which is a component of the Rcs signalling pathway that controls a variety of physiological functions like capsule synthesis, cell division, and motility. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381099 [Multi-domain]  Cd Length: 113  Bit Score: 42.46  E-value: 4.11e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLP--DG-ESTALLKWMRDNGYMHPFIM 79
Cdd:cd17546    1 VLVVDDNPVNRKVLKKLLEKLGYEVDVAENGQEALELLKE--EPFDLVLMDLQMPvmDGlEATRRIRELEGGGRRTPIIA 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 492740531  80 MTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAI 114
Cdd:cd17546   79 LTANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 3-115 8.45e-05

phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; This subfamily includes Escherichia coli TorR and ArcA, both OmpR family response regulators that mediate adaptation to changes in various respiratory growth conditions. The TorS-TorR two-component system (TCS) is responsible for the tight regulation of the torCAD operon, which encodes the trimethylamine N-oxide (TMAO) reductase respiratory system in response to anaerobic conditions and the presence of TMAO. The ArcA-ArcB TCS is involved in cell growth during anaerobiosis. ArcA is a global regulator that controls more than 30 operons involved in redox regulation (the Arc modulon). OmpR family DNA-binding response regulators are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381134 [Multi-domain]  Cd Length: 113  Bit Score: 41.60  E-value: 8.45e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMI-RGSIhedDMVLADLRLPDGESTALLKWMRDNGYMhPFIMMT 81
Cdd:cd17619    3 ILIVEDEPVTRATLKSYFEQEGYDVSEAGDGEEMRQILaRQDI---DLVLLDINLPGKDGLSLTRELREQSEV-GIILVT 78

                         90       100       110
                 ....*....|....*....|....*....|....
gi 492740531  82 NYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIR 115
Cdd:cd17619   79 GRDDEVDRIVGLEIGADDYVTKPFNPRELLVRAK 112
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 3-119 8.86e-05

phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family response regulators; The NarL family is one of the more abundant families of DNA-binding response regulators (RRs). Members of the NarL family contain a REC domain and a helix-turn-helix (HTH) DNA-binding output domain, with a majority of members containing a LuxR-type HTH domain. They function as transcriptional regulators. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381090 [Multi-domain]  Cd Length: 117  Bit Score: 41.73  E-value: 8.86e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKA-DFKT-MKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMM 80
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEpDIEVvGEAADGEEALALLRE--LRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVL 78

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 492740531  81 TNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKIKA 119
Cdd:cd17535   79 TAHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 20-115 1.12e-04

phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The Mycobacterium tuberculosis PrrA is part of the PrrA/PrrB two-component system (TCS) that has been implicated in early intracellular multiplication and is essential for viability. Also included in this subfamily is Mycobacterium tuberculosis MprA, part of the MprAB TCS that regulates EspR, a key regulator of the ESX-1 secretion system, and is required for establishment and maintenance of persistent infection in a tissue- and stage-specific fashion. PrrA and MprA belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381142 [Multi-domain]  Cd Length: 116  Bit Score: 41.60  E-value: 1.12e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  20 LQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTNYEEIHSAVHAMKLGAED 99
Cdd:cd17627   18 LRFEGYEVETAVDGAEALRVISG--NRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLTARDSVSDRVAGLDAGADD 95

                         90
                 ....*....|....*.
gi 492740531 100 FILKPLVEDKLLPAIR 115
Cdd:cd17627   96 YLVKPFALEELLARVR 111
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 1-57 2.18e-04

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues.


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 39.09  E-value: 2.18e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 492740531     1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLP 57
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELLKE--EKPDLILLDIMMP 55
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 1-105 2.43e-04

phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator RpfG and similar proteins; Cyclic di-GMP phosphodiesterase response regulator RpfG, together with sensory/regulatory protein RpfC, constitute a two-component system implicated in sensing and responding to the diffusible signal factor (DSF) that is essential for cell-cell signaling. RpfC is a hybrid sensor/histidine kinase that phosphorylates and activates RpfG, which degrades cyclic di-GMP to GMP, leading to the activation of Clp, a global transcriptional regulator that regulates a large set of genes in the DSF pathway. RpfG contains a CheY-like receiver domain attached to a histidine-aspartic acid-glycine-tyrosine-proline (HD-GYP) cyclic di-GMP phosphodiesterase domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381103 [Multi-domain]  Cd Length: 118  Bit Score: 40.50  E-value: 2.43e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAHG-----LAQAKKmirgsiHEDDMVLADLRLP--DGesTALLKWMR-DNG 72
Cdd:cd17551    1 MRILIVDDNPTNLLLLEALLRSAGYLEVVSFTdpreaLAWCRE------NPPDLILLDYMMPgmDG--LEFIRRLRaLPG 72

                         90       100       110
                 ....*....|....*....|....*....|....
gi 492740531  73 YMH-PFIMMTNYEEIHSAVHAMKLGAEDFILKPL 105
Cdd:cd17551   73 LEDvPIVMITADTDREVRLRALEAGATDFLTKPF 106
orf27 CHL00148
Ycf27; Reviewed
 1-117 2.62e-04

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 42.40  E-value: 2.62e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNIlfcdYICSLLQK----ADFKTMKAHGLAQAKKMIRgsIHEDDMVLADLRLPDGESTALLKWMRDNGYMhP 76
Cdd:CHL00148   7 EKILVVDDEA----YIRKILETrlsiIGYEVITASDGEEALKLFR--KEQPDLVILDVMMPKLDGYGVCQEIRKESDV-P 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 492740531  77 FIMMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:CHL00148  80 IIMLTALGDVSDRITGLELGADDYVVKPFSPKELEARIRSV 120
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 3-115 3.14e-04

phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF appears to play an important role in cell wall integrity in a wide range of gram-positive bacteria, and may also modulate cell membrane integrity. It functions as part of a phosphotransfer system that ultimately controls the levels of competence within the bacteria. YycF belongs to the OmpR family of response regulators, which are characterized by a REC domain and a winged helix-turn-helix effector domain involved in DNA binding. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381130 [Multi-domain]  Cd Length: 115  Bit Score: 40.10  E-value: 3.14e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRgsIHEDDMVLADLRLPDGESTALLKWMRDNGYMhPFIMMTN 82
Cdd:cd17614    1 ILVVDDEKPISDILKFNLTKEGYEVVTAYDGREALEKVE--EEQPDLILLDLMLPEKDGLEVCREVRKTSNV-PIIMLTA 77

                         90       100       110
                 ....*....|....*....|....*....|...
gi 492740531  83 YEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIR 115
Cdd:cd17614   78 KDSEVDKVLGLELGADDYVTKPFSNRELLARVK 110
MCM cd17706
MCM helicase family; MCM helicases are a family of helicases that play an important role in ...
 149-249 3.72e-04

MCM helicase family; MCM helicases are a family of helicases that play an important role in replication and homologous recombination repair. The heterohexameric ring-shaped Mcm2-7 complex is part of the replicative helicase that unwinds parental double-stranded DNA at a replication fork to provide single-stranded DNA templates for the replicative polymerases. Mcm8 and Mcm9, form a complex required for homologous recombination (HR) repair induced by DNA interstrand crosslinks (ICLs).


Pssm-ID: 350658 [Multi-domain]  Cd Length: 311  Bit Score: 42.33  E-value: 3.72e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 149 TDMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKvdcGSLSKDLAASAffghVKGAFTGATEEKAGYFLEAQGGTLFMD 228
Cdd:cd17706   40 GDIHILLVGDPGTAKSQILKYVLKIAPRGVYTSGK---GSSGAGLTAAV----VRDSETGEWYLEAGALVLADGGVCCID 112

                         90       100
                 ....*....|....*....|.
gi 492740531 229 EVENLSIETQRMLLRAMEERS 249
Cdd:cd17706  113 EFDKMKELDRTALHEAMEQQT 133
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 2-117 6.36e-04

phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; Mycobacterium tuberculosis PhoP (MtPhoP) is part of the PhoP/PhoR two-component system that is involved in phosphate control by stimulating expression of genes involved in scavenging, transport and mobilization of phosphate, and repressing the utilization of nitrogen sources. Also included in this subfamily is Mycobacterium tuberculosis transcriptional regulatory protein TcrX, part of the two-component regulatory system TcrY/TcrX that may be involved in virulence. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381131 [Multi-domain]  Cd Length: 118  Bit Score: 39.26  E-value: 6.36e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMT 81
Cdd:cd17615    1 RVLVVDDEPNITELLSMALRYEGWDVETAADGAEALAAARE--FRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLFLT 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 492740531  82 NYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:cd17615   79 AKDSVEDRIAGLTAGGDDYVTKPFSLEEVVARLRAL 114
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 3-104 1.24e-03

phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; Escherichia coli CusR is part of the CusS/CusR two-component system (TCS) that is involved in response to copper and silver. Other members of this subfamily include Escherichia coli PcoR, Pseudomonas syringae CopR, and Streptomyces coelicolor CutR, which are all transcriptional regulatory proteins and components of TCSs that regulate genes involved in copper resistance and/or metabolism. member of the subfamily is Escherichia coli HprR (hydrogen peroxide response regulator), previously called YdeW, which is part of the HprSR (or YedVW) TCS involved in stress response to hydrogen peroxide, as well as Cupriavidus metallidurans CzcR, which is part of the CzcS/CzcR TCS involved in the control of cobalt, zinc, and cadmium homeostasis. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381162 [Multi-domain]  Cd Length: 100  Bit Score: 38.19  E-value: 1.24e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAH----GLAQAKKmirgsiHEDDMVLADLRLP--DGEStaLLKWMRDNGYMHP 76
Cdd:cd19935    1 ILVVEDEKKLAEYLKKGLTEEGYAVDVAYdgedGLHLALT------NEYDLIILDVMLPglDGLE--VLRRLRAAGKQTP 72

                         90       100
                 ....*....|....*....|....*...
gi 492740531  77 FIMMTNYEEIHSAVHAMKLGAEDFILKP 104
Cdd:cd19935   73 VLMLTARDSVEDRVKGLDLGADDYLVKP 100
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 3-115 1.28e-03

phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; Escherichia coli PhoP (EcPhoP) is part of the PhoQ/PhoP two-component system (TCS) that regulates virulence genes and plays an essential role in the response of the bacteria to the environment of their mammalian hosts, sensing several stimuli such as extracellular magnesium limitation, low pH, the presence of cationic antimicrobial peptides, and osmotic upshift. This subfamily also includes Brucella suis FeuP, part of the FeuPQ TCS that is involved in the regulation of iron uptake, and Microchaete diplosiphon RcaC, which is required for chromatic adaptation. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381161 [Multi-domain]  Cd Length: 117  Bit Score: 38.42  E-value: 1.28e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAkkMIRGSIHEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMTN 82
Cdd:cd19934    1 LLLVEDDALLAAQLKEQLSDAGYVVDVAEDGEEA--LFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRATPVLILTA 78

                         90       100       110
                 ....*....|....*....|....*....|...
gi 492740531  83 YEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIR 115
Cdd:cd19934   79 RDSWQDKVEGLDAGADDYLTKPFHIEELLARLR 111
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 153-298 1.64e-03

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 38.34  E-value: 1.64e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  153 VLILGNTGTGKEHLAnkihrRSL--RANKPYIKVDCGSL-SKDLAASAffGHVKGAFTGATEEkagyfleaQGGTLFMDE 229
Cdd:pfam00004   1 LLLYGPPGTGKTTLA-----KAVakELGAPFIEISGSELvSKYVGESE--KRLRELFEAAKKL--------APCVIFIDE 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  230 VENL-----------SIETQRMLLRAMEersyrpvgGKQDRRMDVRIIAATN--EDLFQAvaekrfrkdLLYRFhDFTIT 296
Cdd:pfam00004  66 IDALagsrgsggdseSRRVVNQLLTELD--------GFTSSNSKVIVIAATNrpDKLDPA---------LLGRF-DRIIE 127


                  ..
gi 492740531  297 VP 298
Cdd:pfam00004 128 FP 129
fis PRK00430
DNA-binding transcriptional regulator Fis;
411-438 1.77e-03

DNA-binding transcriptional regulator Fis;


Pssm-ID: 179020 [Multi-domain]  Cd Length: 95  Bit Score: 37.35  E-value: 1.77e-03
                         10        20
                 ....*....|....*....|....*...
gi 492740531 411 KGNLTQAAALLGISRPTLYKKMSIHGIS 438
Cdd:PRK00430  68 RGNQTRAALMLGINRGTLRKKLKKYGMN 95
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-68 1.87e-03

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 441799 [Multi-domain]  Cd Length: 131  Bit Score: 38.33  E-value: 1.87e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKA-DFKTM-KAHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWM 68
Cdd:COG2197    2 IRVLIVDDHPLVREGLRALLEAEpDIEVVgEAADGEEALELLEE--LRPDVVLLDIRMPGMDGLEALRRL 69
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 2-104 2.60e-03

phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is part of the BaeSR two-component system that is involved in regulating genes that confer multidrug and metal resistance. In Salmonella, BaeSR induces AcrD and MdtABC drug efflux systems, increasing multidrug and metal resistance. In Escherichia coli, BaeR stimulates multidrug resistance via mdtABC (multidrug transporter ABC, formerly known as yegMNO) genes, which encode a resistance-nodulation-cell division (RND) drug efflux system. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381165 [Multi-domain]  Cd Length: 114  Bit Score: 37.36  E-value: 2.60e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKADFK-TMKAHGlAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDNGYMhPFIMM 80
Cdd:cd19938    1 RILIVEDEPKLAQLLIDYLRAAGYApTLLAHG-DQVLPYVRH--TPPDLILLDLMLPGTDGLTLCREIRRFSDV-PIIMV 76

                         90       100
                 ....*....|....*....|....*
gi 492740531  81 T-NYEEIHSAVhAMKLGAEDFILKP 104
Cdd:cd19938   77 TaRVEEIDRLL-GLELGADDYICKP 100
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 45-119 2.76e-03

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 38.86  E-value: 2.76e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 492740531  45 HEDDMVLADLRLPDGESTALLKWMRDNGYMHPFIMMT--NYEEihSAVHAMKLGAEDFILKPLVEDKLLPAIRKIKA 119
Cdd:PRK10651  51 LDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSvsNHEE--DVVTALKRGADGYLLKDMEPEDLLKALQQAAA 125
PRK11517 PRK11517
DNA-binding response regulator HprR;
1-115 3.12e-03

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 39.11  E-value: 3.12e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMKAhglAQAKKMIRGSIHED-DMVLADLRLPDGESTALLKWMRdNGYMHPFIM 79
Cdd:PRK11517   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAV---SDGRDGLYLALKDDyALIILDIMLPGMDGWQILQTLR-TAKQTPVIC 76

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 492740531  80 MTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIR 115
Cdd:PRK11517  77 LTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVR 112
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 20-104 3.58e-03

phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus subtilis PhoP (BsPhoP) is part of the PhoPR two-component system that participates in a signal transduction network that controls adaptation of the bacteria to phosphate deficiency by regulating (activating or repressing) genes of the Pho regulon upon phosphorylation by PhoR. When activated, PhoPR directs expression of phosphate scavenging enzymes, lowers synthesis of the phosphate-rich wall teichoic acid (WTA) and initiates synthesis of teichuronic acid, a non-phosphate containing replacement anionic polymer. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381164 [Multi-domain]  Cd Length: 116  Bit Score: 37.25  E-value: 3.58e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  20 LQKADFKTMKAHGLAQAKKMIRGSihEDDMVLADLRLPDGESTALLKWMRDNGY--MHPFIMMTNYEEIHSAVHAMKLGA 97
Cdd:cd19937   17 LEKEGYEVVTAYDGEEALKRAKDE--KPDLIILDLMLPGIDGLEVCRILRSDPKtsSIPIIMLTAKGEEFDKVLGLELGA 94


                 ....*..
gi 492740531  98 EDFILKP 104
Cdd:cd19937   95 DDYITKP 101
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 1-117 4.28e-03

phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response regulator CheY contains a stand-alone REC domain. Chemotaxis is a behavior known for motile bacteria that directs their movement in response to chemical gradients. CheY is involved in transmitting sensory signals from chemoreceptors to the flagellar motors. Phosphorylated CheY interacts with the flagella switch components FliM and FliY, which causes counterclockwise rotation of the flagella, resulting in smooth swimming. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381097 [Multi-domain]  Cd Length: 117  Bit Score: 36.87  E-value: 4.28e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTM-KAHGLAQAKKMIRGsiHEDDMVLADLRLPDGES-TALLKWMRDNGYMHpFI 78
Cdd:cd17542    1 KKVLIVDDAAFMRMMLKDILTKAGYEVVgEAANGEEAVEKYKE--LKPDLVTMDITMPEMDGiEALKEIKKIDPNAK-VI 77

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 492740531  79 MMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:cd17542   78 MCSAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKV 116
PRK14084 PRK14084
DNA-binding response regulator;
89-158 4.87e-03

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 38.58  E-value: 4.87e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 492740531  89 AVHAMKLGAEDFILKPLVEDKLLPAIRKIKAA---NDTFSKVIYERRSASF-----CELNQYIHLVAPTDMTVLILGN 158
Cdd:PRK14084  87 AVKAFELNATDYILKPFEQKRIEQAVNKVRATkakDDNNASAIANDMSANFdqslpIEIDDKIHMLNQQDIIAIGVHN 164
MCM_arch cd17761
archaeal MCM protein; archaeal MCM proteins form a homohexameric ring homologous to the ...
 150-249 5.11e-03

archaeal MCM protein; archaeal MCM proteins form a homohexameric ring homologous to the eukaryotic Mcm2-7 helicase and also function as the replicative helicase at the replication fork


Pssm-ID: 350667 [Multi-domain]  Cd Length: 308  Bit Score: 38.59  E-value: 5.11e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531 150 DMTVLILGNTGTGKEHLANKIHRRSLRANKPYIKvdcGSLSKDLAASAffghVKGAFTGATEEKAGYFLEAQGGTLFMDE 229
Cdd:cd17761   42 DIHILLVGDPGTAKSQLLKYVSKVAPRAVYTTGK---GSTAAGLTAAV----VRDEGTGEWYLEAGALVLADKGIAVVDE 114

                         90       100
                 ....*....|....*....|
gi 492740531 230 VENLSIETQRMLLRAMEERS 249
Cdd:cd17761  115 IDKMRKEDRSALHEAMEQQT 134
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 2-115 6.34e-03

phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is part of MtrA/MtrB (or MtrAB), a highly conserved two-component system (TCS) implicated in the regulation of cell division in the actinobacteria. In unicellular Mycobacterium tuberculosis, MtrAB coordinates DNA replication with cell division and regulates the transcription of resuscitation-promoting factor B. In filamentous Streptomyces venezuelae, it links antibiotic production to sporulation. MtrA belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381141 [Multi-domain]  Cd Length: 115  Bit Score: 36.29  E-value: 6.34e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAKKMIRGSihEDDMVLADLRLPDGESTALLKWMRDNGYMhPFIMMT 81
Cdd:cd17626    2 RILVVDDDAALAEMIGIVLRGEGFDPAFCGDGTQALAAFREV--RPDLVLLDLMLPGIDGIEVCRQIRAESGV-PIVMLT 78

                         90       100       110
                 ....*....|....*....|....*....|....
gi 492740531  82 NYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIR 115
Cdd:cd17626   79 AKSDTVDVVLGLESGADDYVAKPFKPKELVARIR 112
PRK10610 PRK10610
chemotaxis protein CheY;
1-117 6.42e-03

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 36.88  E-value: 6.42e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   1 MKVIVIEDNILFCDYICSLLQKADFKTMK-AHGLAQAKKMIRGSihEDDMVLADLRLPDGESTALLKWMRDNGYMH--PF 77
Cdd:PRK10610   6 LKFLVVDDFSTMRRIVRNLLKELGFNNVEeAEDGVDALNKLQAG--GFGFVISDWNMPNMDGLELLKTIRADGAMSalPV 83

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 492740531  78 IMMTNYEEIHSAVHAMKLGAEDFILKPLVEDKLLPAIRKI 117
Cdd:PRK10610  84 LMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 123
PRK10710 PRK10710
DNA-binding transcriptional regulator BaeR; Provisional
 3-104 6.55e-03

DNA-binding transcriptional regulator BaeR; Provisional


Pssm-ID: 182665 [Multi-domain]  Cd Length: 240  Bit Score: 38.13  E-value: 6.55e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDN----ILFCDYicslLQKADFKTmkaHGLAQAKKMIRG-SIHEDDMVLADLRLPDGESTALLKWMRDNGYMhPF 77
Cdd:PRK10710  13 ILIVEDEpklgQLLIDY----LQAASYAT---TLLSHGDEVLPYvRQTPPDLILLDLMLPGTDGLTLCREIRRFSDI-PI 84

                         90       100
                 ....*....|....*....|....*...
gi 492740531  78 IMMT-NYEEIHSAVhAMKLGAEDFILKP 104
Cdd:PRK10710  85 VMVTaKIEEIDRLL-GLEIGADDYICKP 111
REC_1_GGDEF cd19921
first phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 2-81 6.90e-03

first phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This family is composed of uncharacterized PleD-like response regulators that contain two N-terminal REC domains and a C-terminal diguanylate cyclase output domain with the characteristic GGDEF motif at the active site. Unlike PleD which contains a REC-like adaptor domain, the second REC domain of these uncharacterized GGDEF domain proteins contains characteristic metal-binding and active site residues. PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes the first REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381148 [Multi-domain]  Cd Length: 115  Bit Score: 36.39  E-value: 6.90e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLL-QKADFKTMKAHGLAQAKKMIRGsihEDDMVLA--DLRLPDGESTALLKWMRDNGymHPFI 78
Cdd:cd19921    1 KVLIVEDSKTFSKVLKHLIaQELGLEVDVAETLAEAKALLEE---GDDYFAAlvDLNLPDAPNGEAVDLVLEKG--IPVI 75


                 ...
gi 492740531  79 MMT 81
Cdd:cd19921   76 VLT 78
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 3-160 7.78e-03

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 37.86  E-value: 7.78e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   3 VIVIEDNILFCDYICSLLQKADFKTMKAHGLAQAkkMIRGSIHEDDMVLADLRLPDGESTALLKWMRDNGYMhPFIMMTN 82
Cdd:PRK10529   4 VLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRG--LLEAATRKPDLIILDLGLPDGDGIEFIRDLRQWSAI-PVIVLSA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531  83 YEEIHSAVHAMKLGAEDFILKPLVEDKLLP----AIRKIKAAND-----TFSKVIYERRSASFCELNQYIHLvAPTDMTV 153
Cdd:PRK10529  81 RSEESDKIAALDAGADDYLSKPFGIGELQArlrvALRRHSATPApdplvKFSDVTVDLAARVIHRGEEEVHL-TPIEFRL 159


                 ....*....
gi 492740531 154 L--ILGNTG 160
Cdd:PRK10529 160 LavLLNNAG 168
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 2-104 8.66e-03

phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the phosphorelay system in the early stage of spore formation. It may be an element of the effector pathway responsible for the activation of sporulation genes in response to nutritional stress and may act in the with sigma factor spo0H to control the expression of some genes that are critical to the sporulation process. Spo0A contains a regulatory N-terminal REC domain and a C-terminal DNA-binding transcription activation domain as its effector/output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381109 [Multi-domain]  Cd Length: 108  Bit Score: 36.05  E-value: 8.66e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492740531   2 KVIVIEDNILFCDYICSLLQ-KADFKTMK-AHGLAQAKKMIRGsiHEDDMVLADLRLPDGESTALLKWMRDN--GYMHPF 77
Cdd:cd17561    3 KVLIADDNREFVQLLEEYLNsQPDMEVVGvAHNGQEALELIEE--KEPDVLLLDIIMPHLDGIGVLEKLRRMrlEKRPKI 80

                         90       100
                 ....*....|....*....|....*..
gi 492740531  78 IMMTNYEEIHSAVHAMKLGAEDFILKP 104
Cdd:cd17561   81 IMLTAFGQEDITQRAVELGASYYILKP 107
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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