|
Name |
Accession |
Description |
Interval |
E-value |
| PRK05022 |
PRK05022 |
nitric oxide reductase transcriptional regulator NorR; |
3-506 |
0e+00 |
|
nitric oxide reductase transcriptional regulator NorR;
Pssm-ID: 235331 [Multi-domain] Cd Length: 509 Bit Score: 901.46 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 3 FSVEVLAGIAIELQRGIGHQDRFQRLITTLRQVLACDASALLRYESRQFIPLAIDGLAQDVLGRRFTLEGHPRLEAIARA 82
Cdd:PRK05022 1 FSLDALLPIALDLSRGLPHQDRFQRLLTTLRQVLPCDASALLRLDGDQLVPLAIDGLSPDVLGRRFALEEHPRLEAILRA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 83 GDVVRFPADSDLPDPYDGLIPGQ-ESLKVHACVGLPLFAGQNLIGALTLDAMTPEQFEVFSDEELRLVAALAAGALSNAL 161
Cdd:PRK05022 81 GDPVRFPADSELPDPYDGLIPGVqESLPVHDCMGLPLFVDGRLIGALTLDALDPGQFDAFSDEELRALAALAAATLRNAL 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 162 LIEQLESQNMLPGSSGVF---EPIKETHMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNP 238
Cdd:PRK05022 161 LIEQLESQAELPQDVAEFlrqEALKEGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPRADKP 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 239 LVYLNCAALPESVAESELFGHVKGAFTGAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLR 318
Cdd:PRK05022 241 LVYLNCAALPESLAESELFGHVKGAFTGAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLR 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 319 VDVRVLAATNRDLREEVLAGRFRADLFHRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNY 398
Cdd:PRK05022 321 VDVRVIAATNRDLREEVRAGRFRADLYHRLSVFPLSVPPLRERGDDVLLLAGYFLEQNRARLGLRSLRLSPAAQAALLAY 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 399 GWPGNVRELEHAIHRAVVLARATRAGDEVVLEEQHFAL-SEDVLPAPSAESFLALPACRNLRESTENFQREMIRQALAQN 477
Cdd:PRK05022 401 DWPGNVRELEHVISRAALLARARGAGRIVTLEAQHLDLpAEVALPPPEAAAAPAAVVSQNLREATEAFQRQLIRQALAQH 480
|
490 500
....*....|....*....|....*....
gi 158706118 478 NHNWAASARALETDVANLHRLAKRLGLKD 506
Cdd:PRK05022 481 QGNWAAAARALELDRANLHRLAKRLGLKD 509
|
|
| RocR |
COG3829 |
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ... |
186-505 |
1.11e-148 |
|
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: 432.66 E-value: 1.11e-148
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 186 HMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFT 265
Cdd:COG3829 139 DIIGKSPAMKELLELAKRVAKSDSTVLILGESGTGKELFARAIHNASPRRDGPFVAVNCAAIPENLLESELFGYEKGAFT 218
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 266 GAISN-RSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADL 344
Cdd:COG3829 219 GAKKGgKPGLFELADGGTLFLDEIGEMPLSLQAKLLRVLQEKEVRRVGGTKPIPVDVRIIAATNRDLEEMVEEGRFREDL 298
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 345 FHRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLARatraG 424
Cdd:COG3829 299 YYRLNVIPIHIPPLRERKEDIPLLAEHFLEKFNKKYGKNIKGISPEALELLLAYDWPGNVRELENVIERAVVLSE----G 374
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 425 DEVVLEEQHFALSEDVLPAPSAESflalpacRNLRESTENFQREMIRQALAQNNHNWAASARALETDVANLHRLAKRLGL 504
Cdd:COG3829 375 DVITPEHLPEYLLEEAEAASAAEE-------GSLKEALEEVEKELIEEALEKTGGNKSKAAKALGISRSTLYRKLKKYGI 447
|
.
gi 158706118 505 K 505
Cdd:COG3829 448 K 448
|
|
| nifA |
TIGR01817 |
Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein ... |
114-489 |
6.62e-107 |
|
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: 328.98 E-value: 6.62e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 114 VGLPLFAGQNLIGALTLDAMtpEQFEVFSDEELR--------------LVAALAAGALSNALLIEQLESQNMLPGSSGVF 179
Cdd:TIGR01817 112 IGVPIKADSETIGVLAADRD--FRSRERLEEEVRflemvanligqtvrLHRLVAQRRERLIAEAVQLSKQLRDKAPEIAR 189
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 180 E-PIKETHMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFG 258
Cdd:TIGR01817 190 RrSGKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLESELFG 269
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 259 HVKGAFTGAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAG 338
Cdd:TIGR01817 270 HEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEAVAKG 349
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 339 RFRADLFHRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSrVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLA 418
Cdd:TIGR01817 350 EFRADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRP-LTITPSAIRVLMSCKWPGNVRELENCLERTATLS 428
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 419 RATragdevVLEEQHFALSED----------------------VLPAPSAESFLALPACRNLRESTENfQREMIRQALAQ 476
Cdd:TIGR01817 429 RSG------TITRSDFSCQSGqclspmlaktcphghisidplaGTTPPHSPASAALPGEPGLSGPTLS-ERERLIAALEQ 501
|
410
....*....|...
gi 158706118 477 NNHNWAASARALE 489
Cdd:TIGR01817 502 AGWVQAKAARLLG 514
|
|
| Sigma54_activat |
pfam00158 |
Sigma-54 interaction domain; |
187-353 |
6.27e-102 |
|
Sigma-54 interaction domain;
Pssm-ID: 425491 [Multi-domain] Cd Length: 168 Bit Score: 302.78 E-value: 6.27e-102
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 187 MIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFTG 266
Cdd:pfam00158 1 IIGESPAMQEVLEQAKRVAPTDAPVLITGESGTGKELFARAIHQLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 267 AISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLFH 346
Cdd:pfam00158 81 ADSDRKGLFELADGGTLFLDEIGELPLELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAATNRDLEEAVAEGRFREDLYY 160
|
....*..
gi 158706118 347 RLSVFPL 353
Cdd:pfam00158 161 RLNVIPI 167
|
|
| RNA_repair_RtcR |
NF038308 |
RNA repair transcriptional activator RtcR; |
188-505 |
1.91e-95 |
|
RNA repair transcriptional activator RtcR;
Pssm-ID: 468466 [Multi-domain] Cd Length: 527 Bit Score: 299.10 E-value: 1.91e-95
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 188 IGLSPAMTQLKKEIEIVAG-SDLNVLIGGETGTGKELVAKAIHQGSPRA---VNPLVYLNCAALPESVAESELFGHVKGA 263
Cdd:NF038308 182 ATRNAAFNRLIEQIERVALrSRAPILLTGPTGAGKSFLARRIYELKKRRhqvSGPFVEVNCATLRGDLAMSELFGHVKGA 261
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 264 FTGAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRAD 343
Cdd:NF038308 262 FTGAQADRAGLLRAADGGTLFLDEIGELGLDEQAMLLRAIEEKRFLPVGSDKEVSSDFQLIAGTNRDLRQEVAEGRFRED 341
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 344 LFHRLSVFPLFVPPLRERGDDVVLLAGYFCEQC-----RLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLA 418
Cdd:NF038308 342 LYARINLWTFRLPGLRERREDIEPNLDYELDRFarelgRQVRFNKEARFRYLAFATSPEALWPGNFRELSASVTRMATLA 421
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 419 RATRAGDEVVLEE-QHFALSEDVLPAPSAESFLALPACRNLRESTENF---QREMIRQALAQNNHNWAASARAL-----E 489
Cdd:NF038308 422 DGGRITEELVEEEiARLRAAWQSAPAAADDDALADLLGGEQLAELDLFdrvQLAAVLRVCRQSRSLSAAGRRLFgvsrqQ 501
|
330 340
....*....|....*....|
gi 158706118 490 TDVAN-LHRLAK---RLGLK 505
Cdd:NF038308 502 KASPNdADRLRKylaRFGLS 521
|
|
| AAA |
cd00009 |
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
192-349 |
1.48e-22 |
|
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: 93.75 E-value: 1.48e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 192 PAMTQLKKEIEIVA--GSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVkgaftgAIS 269
Cdd:cd00009 1 VGQEEAIEALREALelPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF------LVR 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 270 NRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDiqrvgDDRSLRVDVRVLAATNRDlreevLAGRFRADLFHRLS 349
Cdd:cd00009 75 LLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLN-----DLRIDRENVRVIGATNRP-----LLGDLDRALYDRLD 144
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
210-348 |
1.81e-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: 62.01 E-value: 1.81e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 210 NVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFTGAISNRSGK--FEMA---DNGTLF 284
Cdd:smart00382 4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRlaLALArklKPDVLI 83
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 158706118 285 LDEIGELSLALQAKLLRVLQygdIQRVGDDRSLRVDVRVLAATNR--DLREEVLAGRFRADLFHRL 348
Cdd:smart00382 84 LDEITSLLDAEQEALLLLLE---ELRLLLLLKSEKNLTVILTTNDekDLGPALLRRRFDRRIVLLL 146
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK05022 |
PRK05022 |
nitric oxide reductase transcriptional regulator NorR; |
3-506 |
0e+00 |
|
nitric oxide reductase transcriptional regulator NorR;
Pssm-ID: 235331 [Multi-domain] Cd Length: 509 Bit Score: 901.46 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 3 FSVEVLAGIAIELQRGIGHQDRFQRLITTLRQVLACDASALLRYESRQFIPLAIDGLAQDVLGRRFTLEGHPRLEAIARA 82
Cdd:PRK05022 1 FSLDALLPIALDLSRGLPHQDRFQRLLTTLRQVLPCDASALLRLDGDQLVPLAIDGLSPDVLGRRFALEEHPRLEAILRA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 83 GDVVRFPADSDLPDPYDGLIPGQ-ESLKVHACVGLPLFAGQNLIGALTLDAMTPEQFEVFSDEELRLVAALAAGALSNAL 161
Cdd:PRK05022 81 GDPVRFPADSELPDPYDGLIPGVqESLPVHDCMGLPLFVDGRLIGALTLDALDPGQFDAFSDEELRALAALAAATLRNAL 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 162 LIEQLESQNMLPGSSGVF---EPIKETHMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNP 238
Cdd:PRK05022 161 LIEQLESQAELPQDVAEFlrqEALKEGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPRADKP 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 239 LVYLNCAALPESVAESELFGHVKGAFTGAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLR 318
Cdd:PRK05022 241 LVYLNCAALPESLAESELFGHVKGAFTGAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLR 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 319 VDVRVLAATNRDLREEVLAGRFRADLFHRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNY 398
Cdd:PRK05022 321 VDVRVIAATNRDLREEVRAGRFRADLYHRLSVFPLSVPPLRERGDDVLLLAGYFLEQNRARLGLRSLRLSPAAQAALLAY 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 399 GWPGNVRELEHAIHRAVVLARATRAGDEVVLEEQHFAL-SEDVLPAPSAESFLALPACRNLRESTENFQREMIRQALAQN 477
Cdd:PRK05022 401 DWPGNVRELEHVISRAALLARARGAGRIVTLEAQHLDLpAEVALPPPEAAAAPAAVVSQNLREATEAFQRQLIRQALAQH 480
|
490 500
....*....|....*....|....*....
gi 158706118 478 NHNWAASARALETDVANLHRLAKRLGLKD 506
Cdd:PRK05022 481 QGNWAAAARALELDRANLHRLAKRLGLKD 509
|
|
| RocR |
COG3829 |
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ... |
186-505 |
1.11e-148 |
|
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: 432.66 E-value: 1.11e-148
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 186 HMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFT 265
Cdd:COG3829 139 DIIGKSPAMKELLELAKRVAKSDSTVLILGESGTGKELFARAIHNASPRRDGPFVAVNCAAIPENLLESELFGYEKGAFT 218
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 266 GAISN-RSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADL 344
Cdd:COG3829 219 GAKKGgKPGLFELADGGTLFLDEIGEMPLSLQAKLLRVLQEKEVRRVGGTKPIPVDVRIIAATNRDLEEMVEEGRFREDL 298
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 345 FHRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLARatraG 424
Cdd:COG3829 299 YYRLNVIPIHIPPLRERKEDIPLLAEHFLEKFNKKYGKNIKGISPEALELLLAYDWPGNVRELENVIERAVVLSE----G 374
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 425 DEVVLEEQHFALSEDVLPAPSAESflalpacRNLRESTENFQREMIRQALAQNNHNWAASARALETDVANLHRLAKRLGL 504
Cdd:COG3829 375 DVITPEHLPEYLLEEAEAASAAEE-------GSLKEALEEVEKELIEEALEKTGGNKSKAAKALGISRSTLYRKLKKYGI 447
|
.
gi 158706118 505 K 505
Cdd:COG3829 448 K 448
|
|
| AtoC |
COG2204 |
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ... |
180-503 |
4.40e-126 |
|
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: 373.91 E-value: 4.40e-126
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 180 EPIKETHMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGH 259
Cdd:COG2204 126 ENAEDSGLIGRSPAMQEVRRLIEKVAPSDATVLITGESGTGKELVARAIHRLSPRADGPFVAVNCAAIPEELLESELFGH 205
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 260 VKGAFTGAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGR 339
Cdd:COG2204 206 EKGAFTGAVARRIGKFELADGGTLFLDEIGEMPLALQAKLLRVLQEREFERVGGNKPIPVDVRVIAATNRDLEELVEEGR 285
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 340 FRADLFHRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLsRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLAR 419
Cdd:COG2204 286 FREDLYYRLNVFPIELPPLRERREDIPLLARHFLARFAAELGK-PVKLSPEALEALLAYDWPGNVRELENVIERAVILAD 364
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 420 atraGDEVVLEEqhfalsedvlpapsaesflalpacrnLRESTENFQREMIRQALAQNNHNWAASARALETDVANLHRLA 499
Cdd:COG2204 365 ----GEVITAED--------------------------LPEALEEVERELIERALEETGGNVSRAAELLGISRRTLYRKL 414
|
....
gi 158706118 500 KRLG 503
Cdd:COG2204 415 KKYG 418
|
|
| nifA |
TIGR01817 |
Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein ... |
114-489 |
6.62e-107 |
|
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: 328.98 E-value: 6.62e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 114 VGLPLFAGQNLIGALTLDAMtpEQFEVFSDEELR--------------LVAALAAGALSNALLIEQLESQNMLPGSSGVF 179
Cdd:TIGR01817 112 IGVPIKADSETIGVLAADRD--FRSRERLEEEVRflemvanligqtvrLHRLVAQRRERLIAEAVQLSKQLRDKAPEIAR 189
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 180 E-PIKETHMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFG 258
Cdd:TIGR01817 190 RrSGKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLESELFG 269
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 259 HVKGAFTGAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAG 338
Cdd:TIGR01817 270 HEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEAVAKG 349
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 339 RFRADLFHRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSrVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLA 418
Cdd:TIGR01817 350 EFRADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRP-LTITPSAIRVLMSCKWPGNVRELENCLERTATLS 428
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 419 RATragdevVLEEQHFALSED----------------------VLPAPSAESFLALPACRNLRESTENfQREMIRQALAQ 476
Cdd:TIGR01817 429 RSG------TITRSDFSCQSGqclspmlaktcphghisidplaGTTPPHSPASAALPGEPGLSGPTLS-ERERLIAALEQ 501
|
410
....*....|...
gi 158706118 477 NNHNWAASARALE 489
Cdd:TIGR01817 502 AGWVQAKAARLLG 514
|
|
| Sigma54_activat |
pfam00158 |
Sigma-54 interaction domain; |
187-353 |
6.27e-102 |
|
Sigma-54 interaction domain;
Pssm-ID: 425491 [Multi-domain] Cd Length: 168 Bit Score: 302.78 E-value: 6.27e-102
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 187 MIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFTG 266
Cdd:pfam00158 1 IIGESPAMQEVLEQAKRVAPTDAPVLITGESGTGKELFARAIHQLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 267 AISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLFH 346
Cdd:pfam00158 81 ADSDRKGLFELADGGTLFLDEIGELPLELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAATNRDLEEAVAEGRFREDLYY 160
|
....*..
gi 158706118 347 RLSVFPL 353
Cdd:pfam00158 161 RLNVIPI 167
|
|
| AcoR |
COG3284 |
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription]; |
186-503 |
1.53e-101 |
|
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];
Pssm-ID: 442514 [Multi-domain] Cd Length: 625 Bit Score: 317.61 E-value: 1.53e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 186 HMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFT 265
Cdd:COG3284 322 ALAGGDPAMRRALRRARRLADRDIPVLILGETGTGKELFARAIHAASPRADGPFVAVNCAAIPEELIESELFGYEPGAFT 401
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 266 GAISN-RSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADL 344
Cdd:COG3284 402 GARRKgRPGKIEQADGGTLFLDEIGDMPLALQARLLRVLQEREVTPLGGTKPIPVDVRLIAATHRDLRELVAAGRFREDL 481
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 345 FHRLSVFPLFVPPLRERgDDVVLLAGYFCEqcRLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLARATrag 424
Cdd:COG3284 482 YYRLNGLTLTLPPLRER-EDLPALIEHLLR--ELAAGRGPLRLSPEALALLAAYPWPGNVRELRNVLRTALALADGG--- 555
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 158706118 425 devVLEEQHfaLSEDVLPAPSAESFLALPACRNLREStenfQREMIRQALAQNNHNWAASARALETDVANLHRLAKRLG 503
Cdd:COG3284 556 ---VITVED--LPDELRAELAAAAPAAAAPLTSLEEA----ERDAILRALRACGGNVSAAARALGISRSTLYRKLKRYG 625
|
|
| TyrR |
COG3283 |
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid ... |
186-504 |
7.32e-101 |
|
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid transport and metabolism];
Pssm-ID: 442513 [Multi-domain] Cd Length: 514 Bit Score: 312.51 E-value: 7.32e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 186 HMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFT 265
Cdd:COG3283 205 HIVASSPKMRQVIRQAKKMAMLDAPLLIQGETGTGKELLARACHLASPRGDKPFLALNCAALPDDVAESELFGYAPGAFG 284
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 266 GAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLF 345
Cdd:COG3283 285 NAREGKKGLFEQANGGTVFLDEIGEMSPQLQAKLLRFLQDGTFRRVGEEQEVKVDVRVICATQKDLAELVQEGEFREDLY 364
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 346 HRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLARatraGD 425
Cdd:COG3283 365 YRLNVLTLTLPPLRERKSDILPLAEHFVARFSQQLGRPRPRLSPDLVDFLQSYPWPGNVRQLENALYRAVSLLE----GD 440
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 158706118 426 EvvLEEQHFALSEDVLPAPSAESFLAlpacRNLRESTENFQREMIRQALAQNnhnwaASARaletdvanlhRLAKRLGL 504
Cdd:COG3283 441 E--LTPEDLQLPEYAASAGLLDDLLE----GSLDEIVKRFERSLLRRLYPSY-----PSTR----------KLAKRLGV 498
|
|
| PRK11361 |
PRK11361 |
acetoacetate metabolism transcriptional regulator AtoC; |
186-488 |
4.85e-98 |
|
acetoacetate metabolism transcriptional regulator AtoC;
Pssm-ID: 183099 [Multi-domain] Cd Length: 457 Bit Score: 303.69 E-value: 4.85e-98
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 186 HMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFT 265
Cdd:PRK11361 144 HILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESLLESELFGHEKGAFT 223
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 266 GAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLF 345
Cdd:PRK11361 224 GAQTLRQGLFERANEGTLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGTFREDLF 303
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 346 HRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLAratrAGD 425
Cdd:PRK11361 304 YRLNVIHLILPPLRDRREDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWPGNIRELSNVIERAVVMN----SGP 379
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 158706118 426 EVVLEEQHFALSEDVLPAPSAESflALPACRNLRESTENFQREMIRQALAQNNHNWAASARAL 488
Cdd:PRK11361 380 IIFSEDLPPQIRQPVCNAGEVKT--APVGERNLKEEIKRVEKRIIMEVLEQQEGNRTRTALML 440
|
|
| RNA_repair_RtcR |
NF038308 |
RNA repair transcriptional activator RtcR; |
188-505 |
1.91e-95 |
|
RNA repair transcriptional activator RtcR;
Pssm-ID: 468466 [Multi-domain] Cd Length: 527 Bit Score: 299.10 E-value: 1.91e-95
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 188 IGLSPAMTQLKKEIEIVAG-SDLNVLIGGETGTGKELVAKAIHQGSPRA---VNPLVYLNCAALPESVAESELFGHVKGA 263
Cdd:NF038308 182 ATRNAAFNRLIEQIERVALrSRAPILLTGPTGAGKSFLARRIYELKKRRhqvSGPFVEVNCATLRGDLAMSELFGHVKGA 261
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 264 FTGAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRAD 343
Cdd:NF038308 262 FTGAQADRAGLLRAADGGTLFLDEIGELGLDEQAMLLRAIEEKRFLPVGSDKEVSSDFQLIAGTNRDLRQEVAEGRFRED 341
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 344 LFHRLSVFPLFVPPLRERGDDVVLLAGYFCEQC-----RLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLA 418
Cdd:NF038308 342 LYARINLWTFRLPGLRERREDIEPNLDYELDRFarelgRQVRFNKEARFRYLAFATSPEALWPGNFRELSASVTRMATLA 421
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 419 RATRAGDEVVLEE-QHFALSEDVLPAPSAESFLALPACRNLRESTENF---QREMIRQALAQNNHNWAASARAL-----E 489
Cdd:NF038308 422 DGGRITEELVEEEiARLRAAWQSAPAAADDDALADLLGGEQLAELDLFdrvQLAAVLRVCRQSRSLSAAGRRLFgvsrqQ 501
|
330 340
....*....|....*....|
gi 158706118 490 TDVAN-LHRLAK---RLGLK 505
Cdd:NF038308 502 KASPNdADRLRKylaRFGLS 521
|
|
| PEP_resp_reg |
TIGR02915 |
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ... |
187-505 |
4.02e-93 |
|
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: 290.50 E-value: 4.02e-93
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 187 MIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFTG 266
Cdd:TIGR02915 141 LITSSPGMQKICRTIEKIAPSDITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPENLLESELFGYEKGAFTG 220
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 267 AISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLFH 346
Cdd:TIGR02915 221 AVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQDLKRMIAEGTFREDLFY 300
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 347 RLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLAratrAGDE 426
Cdd:TIGR02915 301 RIAEISITIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALRALEAHAWPGNVRELENKVKRAVIMA----EGNQ 376
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 158706118 427 VVLEEQHFAlsedvlPAPSAESFLALpacrNLRESTENFQREMIRQALAQNNHNWAASARALETDVANLHRLAKRLGLK 505
Cdd:TIGR02915 377 ITAEDLGLD------ARERAETPLEV----NLREVRERAEREAVRKAIARVDGNIARAAELLGITRPTLYDLMKKHGIK 445
|
|
| PRK10365 |
PRK10365 |
sigma-54-dependent response regulator transcription factor ZraR; |
187-497 |
2.47e-90 |
|
sigma-54-dependent response regulator transcription factor ZraR;
Pssm-ID: 182412 [Multi-domain] Cd Length: 441 Bit Score: 283.07 E-value: 2.47e-90
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 187 MIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFTG 266
Cdd:PRK10365 141 MVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNESLLESELFGHEKGAFTG 220
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 267 AISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLFH 346
Cdd:PRK10365 221 ADKRREGRFVEADGGTLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQDLYY 300
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 347 RLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLAratrAGDE 426
Cdd:PRK10365 301 RLNVVAIEVPSLRQRREDIPLLAGHFLQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLL----TGEY 376
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 158706118 427 VVLEEQHFALSEDVLPAPSAESFLALPacrnlresteNFQREMIRQALAQNNHNWAASARAL----ETDVANLHR 497
Cdd:PRK10365 377 ISERELPLAIASTPIPLGQSQDIQPLV----------EVEKEVILAALEKTGGNKTEAARQLgitrKTLLAKLSR 441
|
|
| ntrC |
TIGR01818 |
nitrogen regulation protein NR(I); This model represents NtrC, a DNA-binding response ... |
169-488 |
4.37e-89 |
|
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: 280.47 E-value: 4.37e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 169 QNMLPGSSGVFEPIKEthMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALP 248
Cdd:TIGR01818 120 QVALPADAGEAEDSAE--LIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIP 197
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 249 ESVAESELFGHVKGAFTGAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATN 328
Cdd:TIGR01818 198 KDLIESELFGHEKGAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATH 277
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 329 RDLREEVLAGRFRADLFHRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNYGWPGNVRELE 408
Cdd:TIGR01818 278 QNLEALVRQGKFREDLFHRLNVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQLRWPGNVRQLE 357
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 409 HAIHRAVVLARATRAGDEVVLEEQHFALSEDVLPAP----SAESFLALPACRNLRESTEN--------FQREMIRQALAQ 476
Cdd:TIGR01818 358 NLCRWLTVMASGDEVLVSDLPAELALTGRPASAPDSdgqdSWDEALEAWAKQALSRGEQGlldralpeFERPLLEAALQH 437
|
330
....*....|..
gi 158706118 477 NNHNWAASARAL 488
Cdd:TIGR01818 438 TRGHKQEAAALL 449
|
|
| phageshock_pspF |
TIGR02974 |
psp operon transcriptional activator PspF; Members of this protein family are PspF, the ... |
188-488 |
6.70e-89 |
|
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: 275.71 E-value: 6.70e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 188 IGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFTGA 267
Cdd:TIGR02974 2 IGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGHEAGAFTGA 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 268 ISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLFHR 347
Cdd:TIGR02974 82 QKRHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALAAEGRFRADLLDR 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 348 LSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVV-LSPGARRHLLNYGWPGNVRELEHAIHRAVV-LARATRAGD 425
Cdd:TIGR02974 162 LAFDVITLPPLRERQEDIMLLAEHFAIRMARELGLPLFPgFTPQAREQLLEYHWPGNVRELKNVVERSVYrHGLEEAPID 241
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 158706118 426 EVVL--------------EEQHFALSEDVLPAPSAESFlALPacRNLRESTENFQREMIRQALAQNNHNWAASARAL 488
Cdd:TIGR02974 242 EIIIdpfaspwrpkqaapAVDEVNSTPTDLPSPSSIAA-AFP--LDLKQAQQDYEIELLQQALAEAQFNQRKAAELL 315
|
|
| FhlA |
COG3604 |
FhlA-type transcriptional regulator, contains GAF, AAA-type ATPase, and DNA-binding Fis ... |
75-505 |
1.87e-85 |
|
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: 267.10 E-value: 1.87e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 75 RLEAIARAGDVVRFPADSDLPDPYDGLIPGQESLKVHACVGLPLFAGQNLIGALTLDAMTPEQFevfSDEELrlvaalaa 154
Cdd:COG3604 38 ASALVLEESLELLALALSEALLAAQARQAALAARERQLFLGVPLRVGGEVLGVLTLDSRRPGAF---SEEDL-------- 106
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 155 galsnallieqlesqnmlpgssgvfepikethmiglspamtqlkKEIEIVAgSDLNVLIGGETGTGKELVAKAIHQGSPR 234
Cdd:COG3604 107 --------------------------------------------RLLETLA-SLAAVAILGETGTGKELVANAIHELSPR 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 235 AVNPLVYLNCAALPESVAESelfghvkgaftgaisnrsgkfemadngtlfldeigelslalqakllrvLQYGDIQRVGDD 314
Cdd:COG3604 142 ADKPFVKVNCAALPESLLES------------------------------------------------LQEGEFERVGGD 173
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 315 RSLRVDVRVLAATNRDLREEVLAGRFRADLFHRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRH 394
Cdd:COG3604 174 ETIKVDVRIIAATNRDLEEEVAEGRFREDLYYRLNVFPIRLPPLRERREDIPLLAEHFLEKFSRRLGKPILRLSPEALEA 253
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 395 LLNYGWPGNVRELEHAIHRAVVLARATragdevVLEEQHFALSEdvlpapsaesflalpacrnlRESTENFQREMIRQAL 474
Cdd:COG3604 254 LMAYPWPGNVRELENVIERAVILAEGG------VLDADDLAPGS--------------------REALEEVEREHILEAL 307
|
410 420 430
....*....|....*....|....*....|.
gi 158706118 475 AQNNHNWAASARALETDVANLHRLAKRLGLK 505
Cdd:COG3604 308 ERTGGNIAGAARLLGLTPSTLRSRMKKLGIK 338
|
|
| PRK15429 |
PRK15429 |
formate hydrogenlyase transcriptional activator FlhA; |
187-505 |
4.05e-80 |
|
formate hydrogenlyase transcriptional activator FlhA;
Pssm-ID: 237965 [Multi-domain] Cd Length: 686 Bit Score: 263.23 E-value: 4.05e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 187 MIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFTG 266
Cdd:PRK15429 378 IIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTG 457
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 267 AISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLFH 346
Cdd:PRK15429 458 ASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYY 537
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 347 RLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLARATragde 426
Cdd:PRK15429 538 RLNVFPIHLPPLRERPEDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLTRGN----- 612
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 158706118 427 vVLEeqhFALSEDVLPAPSAEsflalPACRNLRESTENfQREMIRQALAQNNHNWAASARAletdvanlhrlAKRLGLK 505
Cdd:PRK15429 613 -VLQ---LSLPDITLPEPETP-----PAATVVAQEGED-EYQLIVRVLKETNGVVAGPKGA-----------AQRLGLK 670
|
|
| glnG |
PRK10923 |
nitrogen regulation protein NR(I); Provisional |
185-505 |
1.91e-79 |
|
nitrogen regulation protein NR(I); Provisional
Pssm-ID: 182842 [Multi-domain] Cd Length: 469 Bit Score: 255.57 E-value: 1.91e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 185 THMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAF 264
Cdd:PRK10923 138 TDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLIESELFGHEKGAF 217
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 265 TGAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADL 344
Cdd:PRK10923 218 TGANTIRQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQRVQEGKFREDL 297
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 345 FHRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLAratrAG 424
Cdd:PRK10923 298 FHRLNVIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPETEAALTRLAWPGNVRQLENTCRWLTVMA----AG 373
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 425 DEVVLEEQHFALSEDVLPAPSAES-------FLALPACRNLRESTEN--------FQREMIRQALAQNNHNWAASARALE 489
Cdd:PRK10923 374 QEVLIQDLPGELFESTVPESTSQMqpdswatLLAQWADRALRSGHQNllseaqpeLERTLLTTALRHTQGHKQEAARLLG 453
|
330
....*....|....*.
gi 158706118 490 TDVANLHRLAKRLGLK 505
Cdd:PRK10923 454 WGRNTLTRKLKELGME 469
|
|
| PRK15424 |
PRK15424 |
propionate catabolism operon regulatory protein PrpR; Provisional |
187-488 |
1.43e-77 |
|
propionate catabolism operon regulatory protein PrpR; Provisional
Pssm-ID: 237963 [Multi-domain] Cd Length: 538 Bit Score: 252.72 E-value: 1.43e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 187 MIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSP--------RAVNPLVYLNCAALPESVAESELFG 258
Cdd:PRK15424 221 LLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHREYFarhdarqgKKSHPFVAVNCGAIAESLLEAELFG 300
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 259 HVKGAFTGAI-SNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLA 337
Cdd:PRK15424 301 YEEGAFTGSRrGGRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCDLEEDVRQ 380
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 338 GRFRADLFHRLSVFPLFVPPLRERGDDVVLLAGYFCEQCrlrLGLSRVVLSPGARRHL-------LNYGWPGNVRELEHA 410
Cdd:PRK15424 381 GRFRRDLFYRLSILRLQLPPLRERVADILPLAESFLKQS---LAALSAPFSAALRQGLqqcetllLHYDWPGNVRELRNL 457
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 158706118 411 IHRAVVLARAtragdevvleEQHFALSEDVLPAPSAESFLALPACRNLRESTENfqremIRQALAQNNHNWAASARAL 488
Cdd:PRK15424 458 MERLALFLSV----------EPTPDLTPQFLQLLLPELARESAKTPAPRLLAAT-----LQQALERFNGDKTAAANYL 520
|
|
| pspF |
PRK11608 |
phage shock protein operon transcriptional activator; Provisional |
211-488 |
1.59e-76 |
|
phage shock protein operon transcriptional activator; Provisional
Pssm-ID: 236936 [Multi-domain] Cd Length: 326 Bit Score: 243.42 E-value: 1.59e-76
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 211 VLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFTGAISNRSGKFEMADNGTLFLDEIGE 290
Cdd:PRK11608 32 VLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGHEAGAFTGAQKRHPGRFERADGGTLFLDELAT 111
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 291 LSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLFHRLSVFPLFVPPLRERGDDVVLLAG 370
Cdd:PRK11608 112 APMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVAEGKFRADLLDRLAFDVVQLPPLRERQSDIMLMAE 191
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 371 YFCEQ-CRlRLGLSrvvLSPG----ARRHLLNYGWPGNVRELEHAIHRAVVL-ARATRAGDEVVLEEQHFALSEDVLPAP 444
Cdd:PRK11608 192 HFAIQmCR-ELGLP---LFPGfterARETLLNYRWPGNIRELKNVVERSVYRhGTSEYPLDNIIIDPFKRRPAEEAIAVS 267
|
250 260 270 280
....*....|....*....|....*....|....*....|....
gi 158706118 445 SAESFLALPAcrNLRESTENFQREMIRQALAQNNHNWAASARAL 488
Cdd:PRK11608 268 ETTSLPTLPL--DLREWQHQQEKELLQRSLQQAKFNQKRAAELL 309
|
|
| PRK15115 |
PRK15115 |
response regulator GlrR; Provisional |
186-442 |
2.22e-76 |
|
response regulator GlrR; Provisional
Pssm-ID: 185070 [Multi-domain] Cd Length: 444 Bit Score: 247.06 E-value: 2.22e-76
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 186 HMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFT 265
Cdd:PRK15115 135 AIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQLLESELFGHARGAFT 214
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 266 GAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLF 345
Cdd:PRK15115 215 GAVSNREGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRDLPKAMARGEFREDLY 294
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 346 HRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVVLARATRAGD 425
Cdd:PRK15115 295 YRLNVVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQLVNVIEQCVALTSSPVISD 374
|
250
....*....|....*..
gi 158706118 426 EVVleEQHFALSEDVLP 442
Cdd:PRK15115 375 ALV--EQALEGENTALP 389
|
|
| PRK10820 |
PRK10820 |
transcriptional regulator TyrR; |
186-503 |
2.24e-76 |
|
transcriptional regulator TyrR;
Pssm-ID: 236769 [Multi-domain] Cd Length: 520 Bit Score: 249.22 E-value: 2.24e-76
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 186 HMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFT 265
Cdd:PRK10820 205 QIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDDVVESELFGHAPGAYP 284
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 266 GAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLF 345
Cdd:PRK10820 285 NALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQKGEFREDLY 364
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 346 HRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGLSRVVLSPGARRHLLNYGWPGNVRELEHAIHRAVvlarATRAGD 425
Cdd:PRK10820 365 YRLNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAADLNTVLTRYGWPGNVRQLKNAIYRAL----TQLEGY 440
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 158706118 426 EvvLEEQHFALSEDVLPAPSAESFLAlpacRNLRESTENFQREMIRQaLAQNnhnwAASARaletdvanlhRLAKRLG 503
Cdd:PRK10820 441 E--LRPQDILLPDYDAAVAVGEDAME----GSLDEITSRFERSVLTR-LYRN----YPSTR----------KLAKRLG 497
|
|
| propionate_PrpR |
TIGR02329 |
propionate catabolism operon regulatory protein PrpR; At least five distinct pathways exists ... |
187-488 |
2.81e-75 |
|
propionate catabolism operon regulatory protein PrpR; At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR. [Regulatory functions, DNA interactions]
Pssm-ID: 274079 [Multi-domain] Cd Length: 526 Bit Score: 246.70 E-value: 2.81e-75
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 187 MIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFTG 266
Cdd:TIGR02329 214 LLGASAPMEQVRALVRLYARSDATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAESLLEAELFGYEEGAFTG 293
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 267 A-ISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLF 345
Cdd:TIGR02329 294 ArRGGRTGLIEAAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATHCALTTAVQQGRFRRDLF 373
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 346 HRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLglsRVVLSPGARRH-------LLNYGWPGNVRELEHAIHRAVVLA 418
Cdd:TIGR02329 374 YRLSILRIALPPLRERPGDILPLAAEYLVQAAAAL---RLPDSEAAAQVlagvadpLQRYPWPGNVRELRNLVERLALEL 450
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 419 RATRAGDevVLEEQHFALSEDVLPApSAESFLALPACRnlreSTENFQREMIRQALAQNNHNWAASARAL 488
Cdd:TIGR02329 451 SAMPAGA--LTPDVLRALAPELAEA-SGKGKTSALSLR----ERSRVEALAVRAALERFGGDRDAAAKAL 513
|
|
| PRK11388 |
PRK11388 |
DNA-binding transcriptional regulator DhaR; Provisional |
186-414 |
4.57e-47 |
|
DNA-binding transcriptional regulator DhaR; Provisional
Pssm-ID: 183114 [Multi-domain] Cd Length: 638 Bit Score: 172.94 E-value: 4.57e-47
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 186 HMIGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGhvkGAFT 265
Cdd:PRK11388 326 HMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEALAEEFLG---SDRT 402
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 266 GAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLRVDVRVLAATNRDLREEVLAGRFRADLF 345
Cdd:PRK11388 403 DSENGRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLAMLVEQNRFSRQLY 482
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 158706118 346 HRLSVFPLFVPPLRERGDDVVLLAgyfceQCRLR-LG---LSRVVLSPGARRHLLNYGWPGNVRELEHAIHRA 414
Cdd:PRK11388 483 YALHAFEITIPPLRMRREDIPALV-----NNKLRsLEkrfSTRLKIDDDALARLVSYRWPGNDFELRSVIENL 550
|
|
| RtcR |
COG4650 |
Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a ... |
164-431 |
8.03e-45 |
|
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: 165.01 E-value: 8.03e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 164 EQLESQNMLpgSSGVfepikETHmiglSPAMTQLKKEIEIVAG-SDLNVLIGGETGTGKELVAKAI-------HQGSpra 235
Cdd:COG4650 174 EQQEAVSFL--KSGI-----ATR----NAAFNRLIEQIERVAIrSRAPILLTGPTGAGKSQLARRIyelkkarHQVS--- 239
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 236 vNPLVYLNCAALPESVAESELFGHVKGAFTGAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDR 315
Cdd:COG4650 240 -GRFVEVNCATLRGDGAMSALFGHVKGAFTGAVSDRAGLLRSADGGVLFLDEIGELGLDEQAMLLRAIEEKRFLPVGSDK 318
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 316 SLRVDVRVLAATNRDLREEVLAGRFRADLFHRLSVFPLFVPPLRERGDDVVLLAGYFCEQCRLRLGlSRVVLSPGARRHL 395
Cdd:COG4650 319 EVSSDFQLIAGTNRDLRQEVAEGRFREDLLARINLWTFRLPGLAERREDIEPNLDYELARFAREQG-RRVRFNKEARARY 397
|
250 260 270 280
....*....|....*....|....*....|....*....|..
gi 158706118 396 LNYG------WPGNVRELEHAIHRAVVLARATRAGDEVVLEE 431
Cdd:COG4650 398 LAFAtspealWSGNFRDLNASVTRMATLAEGGRITVALVDEE 439
|
|
| PspF |
COG1221 |
Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain ... |
209-411 |
9.05e-28 |
|
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: 117.52 E-value: 9.05e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 209 LNVLIGGETGTGKELVAKAIHQ-------GSPRAvnPLVYLNCAAL---PESVAeSELFGHVKGAFTGAISNRSGKFEMA 278
Cdd:COG1221 131 LHTLILGPTGVGKSFFAELMYEyaieigvLPEDA--PFVVFNCADYannPQLLM-SQLFGYVKGAFTGADKDKEGLIEKA 207
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 279 DNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGD-DRSLRVDVRVLAATNRDLrEEVLagrfradlfhrLSVF----PL 353
Cdd:COG1221 208 DGGILFLDEVHRLPPEGQEMLFTFMDKGIYRRLGEtEKTRKANVRIIFATTEDP-ESSL-----------LKTFlrriPM 275
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 354 FV--PPLRERGddvvllagyFCEQCRL----------RLGLsRVVLSPGARRHLLNYGWPGNVRELEHAI 411
Cdd:COG1221 276 VIklPSLEERS---------LEERLELikhffkeeakRLNK-PIKVSKEVLKALLLYDCPGNIGQLKSDI 335
|
|
| Sigma54_activ_2 |
pfam14532 |
Sigma-54 interaction domain; |
188-358 |
3.11e-23 |
|
Sigma-54 interaction domain;
Pssm-ID: 434021 [Multi-domain] Cd Length: 138 Bit Score: 95.10 E-value: 3.11e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 188 IGLSPAMTQLKKEIEIVAGSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVaeselfghvkgaftga 267
Cdd:pfam14532 1 LGASAAIQEIKRRLEQAAQSTLPVFLTGEPGSGKEFCARYLHNPSTPWVQPFDIEYLAHAPLEL---------------- 64
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 268 isnrsgkFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDiqrvgddrslRVDVRVLAATNRDLREEVLAGRFRADLFHR 347
Cdd:pfam14532 65 -------LEQAKGGTLYLKDIADLSKALQKGLLLLLAKAE----------GYRVRLVCTSSKDLPQLAAAGLFDEQLYFE 127
|
170
....*....|.
gi 158706118 348 LSVFPLFVPPL 358
Cdd:pfam14532 128 LSALRLHVPPL 138
|
|
| AAA |
cd00009 |
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
192-349 |
1.48e-22 |
|
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: 93.75 E-value: 1.48e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 192 PAMTQLKKEIEIVA--GSDLNVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVkgaftgAIS 269
Cdd:cd00009 1 VGQEEAIEALREALelPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF------LVR 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 270 NRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDiqrvgDDRSLRVDVRVLAATNRDlreevLAGRFRADLFHRLS 349
Cdd:cd00009 75 LLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLN-----DLRIDRENVRVIGATNRP-----LLGDLDRALYDRLD 144
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
210-348 |
1.81e-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: 62.01 E-value: 1.81e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 210 NVLIGGETGTGKELVAKAIHQGSPRAVNPLVYLNCAALPESVAESELFGHVKGAFTGAISNRSGK--FEMA---DNGTLF 284
Cdd:smart00382 4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRlaLALArklKPDVLI 83
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 158706118 285 LDEIGELSLALQAKLLRVLQygdIQRVGDDRSLRVDVRVLAATNR--DLREEVLAGRFRADLFHRL 348
Cdd:smart00382 84 LDEITSLLDAEQEALLLLLE---ELRLLLLLKSEKNLTVILTTNDekDLGPALLRRRFDRRIVLLL 146
|
|
| GAF |
smart00065 |
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these ... |
21-145 |
3.67e-07 |
|
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa.
Pssm-ID: 214500 [Multi-domain] Cd Length: 149 Bit Score: 49.69 E-value: 3.67e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 21 HQDRFQRLITTLRQVLACDASALLRY---ESRQFIPLAIDGLAQDVLGRRFTLEgHPRLEAIARAGDVVRFPaDSdLPDP 97
Cdd:smart00065 2 LEELLQTILEELRQLLGADRVLIYLVdenDRGELVLVAADGLTLPTLGIRFPLD-EGLAGRVAETGRPLNIP-DV-EADP 78
|
90 100 110 120
....*....|....*....|....*....|....*....|....*...
gi 158706118 98 YDGLIPGQESLKVHACVGLPLFAGQNLIGALTLDAMtpEQFEVFSDEE 145
Cdd:smart00065 79 LFAEDLLGRYQGVRSFLAVPLVADGELVGVLALHNK--KSPRPFTEED 124
|
|
| GAF |
pfam01590 |
GAF domain; This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl ... |
22-145 |
2.58e-06 |
|
GAF domain; This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl cyclases, phytochromes, FhlA and NifA. Adenylyl and guanylyl cyclases catalyze ATP and GTP to the second messengers cAMP and cGMP, respectively, these products up-regulating catalytic activity by binding to the regulatory GAF domain(s). The opposite hydrolysis reaction is catalyzed by phosphodiesterase. cGMP-dependent 3',5'-cyclic phosphodiesterase catalyzes the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. Here too, cGMP regulates catalytic activity by GAF-domain binding. Phytochromes are regulatory photoreceptors in plants and bacteria which exist in two thermally-stable states that are reversibly inter-convertible by light: the Pr state absorbs maximally in the red region of the spectrum, while the Pfr state absorbs maximally in the far-red region. This domain is also found in FhlA (formate hydrogen lyase transcriptional activator) and NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54. This domain can bind biliverdine and phycocyanobilin (Matilla et al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).
Pssm-ID: 460259 [Multi-domain] Cd Length: 133 Bit Score: 46.70 E-value: 2.58e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 22 QDRFQRLITTLRQVLACDASALLRYESRQfIPLAIDGLAQDVLGRRFTLEGHPRleAIARAGDVVRFPADSDLPDpYDGL 101
Cdd:pfam01590 3 EEILQTILEELRELLGADRCALYLPDADG-LEYLPPGARWLKAAGLEIPPGTGV--TVLRTGRPLVVPDAAGDPR-FLDP 78
|
90 100 110 120
....*....|....*....|....*....|....*....|....
gi 158706118 102 IPGQESLKVHACVGLPLFAGQNLIGALTLDAMTPEqfevFSDEE 145
Cdd:pfam01590 79 LLLLRNFGIRSLLAVPIIDDGELLGVLVLHHPRPP----FTEEE 118
|
|
| AAA |
pfam00004 |
ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
211-340 |
4.13e-04 |
|
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: 40.27 E-value: 4.13e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 211 VLIGGETGTGKELVAKAIHQGSPRavnPLVYLNCAAL-PESVAESElfGHVKGAFTGAISNRSgkfemadnGTLFLDEI- 288
Cdd:pfam00004 1 LLLYGPPGTGKTTLAKAVAKELGA---PFIEISGSELvSKYVGESE--KRLRELFEAAKKLAP--------CVIFIDEId 67
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 158706118 289 ----------GELSLALQAKLLRVLQygdiqrvgDDRSLRVDVRVLAATNR-DLREEVLAGRF 340
Cdd:pfam00004 68 alagsrgsggDSESRRVVNQLLTELD--------GFTSSNSKVIVIAATNRpDKLDPALLGRF 122
|
|
| AAA_5 |
pfam07728 |
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ... |
210-329 |
7.41e-04 |
|
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: 39.58 E-value: 7.41e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 210 NVLIGGETGTGK----ELVAKAIHQGSPRAVnplvylncaALPESVAESELFG----------HVKGAFTGAIsnRSGKF 275
Cdd:pfam07728 1 GVLLVGPPGTGKtelaERLAAALSNRPVFYV---------QLTRDTTEEDLFGrrnidpggasWVDGPLVRAA--REGEI 69
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*..
gi 158706118 276 emadngtLFLDEIGELSLALQAKLLRVLQYGDIQ---RVGDDRSLRVDVRVLAATNR 329
Cdd:pfam07728 70 -------AVLDEINRANPDVLNSLLSLLDERRLLlpdGGELVKAAPDGFRLIATMNP 119
|
|
| MCM |
cd17706 |
MCM helicase family; MCM helicases are a family of helicases that play an important role in ... |
208-328 |
1.63e-03 |
|
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: 40.40 E-value: 1.63e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 158706118 208 DLNVLIGGETGTGKELVAKAIHQGSPRAVnpLVYLNCAALPESVAESelfghVKGAFTGAISNRSGKFEMADNGTLFLDE 287
Cdd:cd17706 41 DIHILLVGDPGTAKSQILKYVLKIAPRGV--YTSGKGSSGAGLTAAV-----VRDSETGEWYLEAGALVLADGGVCCIDE 113
|
90 100 110 120
....*....|....*....|....*....|....*....|...
gi 158706118 288 IGELSLALQAKLLRVLQYGDIQ--RVGDDRSLRVDVRVLAATN 328
Cdd:cd17706 114 FDKMKELDRTALHEAMEQQTISiaKAGIVTTLNARCSILAAAN 156
|
|
| |
