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Conserved domains on  [gi|740851815|ref|WP_038637068|]
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MULTISPECIES: transcriptional activator NhaR [Citrobacter]

Protein Classification

transcriptional activator NhaR( domain architecture ID 11485178)

transcriptional activator NhaR is a LysR family transcriptional regulator that activates transcription of the nhaA gene encoding a Na(+)/H(+) antiporter

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
nhaR PRK11062
transcriptional activator NhaR; Provisional
 1-296 0e+00

transcriptional activator NhaR; Provisional


:

Pssm-ID: 182938 [Multi-domain]  Cd Length: 296  Bit Score: 673.26  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815   1 MSHINYNHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMFTLSQE 80
Cdd:PRK11062   1 MSHINYNHLYYFWMVCKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPTELGELVFRYADKMFTLSQE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  81 MLDIVNYRKESNLLFDVGVADALSKQLVSRVLNAAVVEDEQIHLRCFESTHEMLLDQLSQHKLDMIISDCPIDSTQQEGL 160
Cdd:PRK11062  81 MLDIVNYRKESNLLFDVGVADALSKRLVSRVLLTAVPEDESIHLRCFESTHEMLLEQLSQHKLDMILSDCPVDSTQQEGL 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815 161 FSVRIGECGVSFWCTQPLPEKPFPACLEERRLLIPGRRSMLGRKLLNWINSQGLNVEILGEFDDAALMKAFGATHNAIFV 240
Cdd:PRK11062 161 FSKKLGECGVSFFCTNPLPEKPFPACLEERRLLIPGRRTMLGRKLLNWFNSQGLNVEILGEFDDAALMKAFGAYHDAIFV 240

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 740851815 241 APTLYSNNFYADDSIVEIGRVENVMEEYHAIFAERMIQHPAVQRICNADYSALFTP 296
Cdd:PRK11062 241 APSLYAQDFYADHSVVEIGRVDNVKEEYHVIFAERMIQHPAVQRICNTDFSALFSG 296
 
Name Accession Description Interval E-value
nhaR PRK11062
transcriptional activator NhaR; Provisional
 1-296 0e+00

transcriptional activator NhaR; Provisional


Pssm-ID: 182938 [Multi-domain]  Cd Length: 296  Bit Score: 673.26  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815   1 MSHINYNHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMFTLSQE 80
Cdd:PRK11062   1 MSHINYNHLYYFWMVCKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPTELGELVFRYADKMFTLSQE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  81 MLDIVNYRKESNLLFDVGVADALSKQLVSRVLNAAVVEDEQIHLRCFESTHEMLLDQLSQHKLDMIISDCPIDSTQQEGL 160
Cdd:PRK11062  81 MLDIVNYRKESNLLFDVGVADALSKRLVSRVLLTAVPEDESIHLRCFESTHEMLLEQLSQHKLDMILSDCPVDSTQQEGL 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815 161 FSVRIGECGVSFWCTQPLPEKPFPACLEERRLLIPGRRSMLGRKLLNWINSQGLNVEILGEFDDAALMKAFGATHNAIFV 240
Cdd:PRK11062 161 FSKKLGECGVSFFCTNPLPEKPFPACLEERRLLIPGRRTMLGRKLLNWFNSQGLNVEILGEFDDAALMKAFGAYHDAIFV 240

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 740851815 241 APTLYSNNFYADDSIVEIGRVENVMEEYHAIFAERMIQHPAVQRICNADYSALFTP 296
Cdd:PRK11062 241 APSLYAQDFYADHSVVEIGRVDNVKEEYHVIFAERMIQHPAVQRICNTDFSALFSG 296
PBP2_NhaR cd08429
The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA ...
 94-294 7.74e-118

The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; NhaR is a positive regulator of the LysR family and is known to be an activator of the nhaA gene encoding a Na(+)/H(+) antiporter. In Escherichia coli, NhaA is the vital antiporter that protects against high sodium stress, and it is essential for growth in high sodium levels, while NhaB becomes essential only if NhaA is not available. The nhaA gene of nhaAR operon is induced by monovalent cations. The nhaR of the operon activates nhaAR, as well as the osmC transcription which is induced at elevated osmolarity. OsmC is transcribed from the two overlapping promoters (osmCp1 and osmP2) and that NhaR is shown to activate only the expression of osmCp1. NhaR also activates the transcription of the pgaABCD operon which is required for production of the biofilm adhesion, poly-beta-1,6-N-acetyl-d-glucosamine (PGA) .Thus, it is suggested that NhaR has an extended role in promoting bacterial survival. This substrate-binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 176120 [Multi-domain]  Cd Length: 204  Bit Score: 336.98  E-value: 7.74e-118
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  94 LFDVGVADALSKQLVSRVLNAAVVEDEQIHLRCFESTHEMLLDQLSQHKLDMIISDCPIDSTQQEGLFSVRIGECGVSFW 173
Cdd:cd08429    1 LFRVGVADAVPKSIAYRLLEPAMDLHEPIRLVCREGKLEQLLADLALHRLDMVLADRPMPSSLDVKGYSHRLGECGVSFF 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815 174 CTQPLP---EKPFPACLEERRLLIPGRRSMLGRKLLNWINSQGLNVEILGEFDDAALMKAFGATHNAIFVAPTLYSNNFY 250
Cdd:cd08429   81 AAPPLAkrlEKPFPASLDEAPLLLPGEDSALRRKLLQWFERQGLRPQIVGEFDDSALMKAFGQAGAGIFAAPTVIADEVA 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 740851815 251 ADDSIVEIGRVENVMEEYHAIFAERMIQHPAVQRICNADYSALF 294
Cdd:cd08429  161 RQYGVVEIGRTDEVVEEFYAISVERRITHPAVVAISEAARSALF 204
LysR COG0583
DNA-binding transcriptional regulator, LysR family [Transcription];
4-284 1.55e-31

DNA-binding transcriptional regulator, LysR family [Transcription];


Pssm-ID: 440348 [Multi-domain]  Cd Length: 256  Bit Score: 118.05  E-value: 1.55e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815   4 INYNHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMFTLSQEMLD 83
Cdd:COG0583    1 MDLRQLRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  84 IV-NYRKESNLLFDVGVADALSKQLVSRVLNAAVVEDEQIHLRCFESTHEMLLDQLSQHKLDMIISDCPIDstqQEGLFS 162
Cdd:COG0583   81 ELrALRGGPRGTLRIGAPPSLARYLLPPLLARFRARHPGVRLELREGNSDRLVDALLEGELDLAIRLGPPP---DPGLVA 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815 163 VRIGECGVSFWCTQPLPekpfpacLEERRLLipgrrsmlgrkllnwinsqglnveilgeFDDAALMKAFGATHNAIFVAP 242
Cdd:COG0583  158 RPLGEERLVLVASPDHP-------LARRAPL----------------------------VNSLEALLAAVAAGLGIALLP 202

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|...
gi 740851815 243 TLYSNNFYADDSIVEIG-RVENVMEEYHAIFAERMIQHPAVQR 284
Cdd:COG0583  203 RFLAADELAAGRLVALPlPDPPPPRPLYLVWRRRRHLSPAVRA 245
HTH_1 pfam00126
Bacterial regulatory helix-turn-helix protein, lysR family;
7-65 5.40e-18

Bacterial regulatory helix-turn-helix protein, lysR family;


Pssm-ID: 459683 [Multi-domain]  Cd Length: 60  Bit Score: 76.27  E-value: 5.40e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 740851815    7 NHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGE 65
Cdd:pfam00126   2 RQLRLFVAVAETGSFTAAAERLGLSQPAVSRQIKRLEEELGVPLFERTTRGVRLTEAGE 60
 
Name Accession Description Interval E-value
nhaR PRK11062
transcriptional activator NhaR; Provisional
 1-296 0e+00

transcriptional activator NhaR; Provisional


Pssm-ID: 182938 [Multi-domain]  Cd Length: 296  Bit Score: 673.26  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815   1 MSHINYNHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMFTLSQE 80
Cdd:PRK11062   1 MSHINYNHLYYFWMVCKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPTELGELVFRYADKMFTLSQE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  81 MLDIVNYRKESNLLFDVGVADALSKQLVSRVLNAAVVEDEQIHLRCFESTHEMLLDQLSQHKLDMIISDCPIDSTQQEGL 160
Cdd:PRK11062  81 MLDIVNYRKESNLLFDVGVADALSKRLVSRVLLTAVPEDESIHLRCFESTHEMLLEQLSQHKLDMILSDCPVDSTQQEGL 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815 161 FSVRIGECGVSFWCTQPLPEKPFPACLEERRLLIPGRRSMLGRKLLNWINSQGLNVEILGEFDDAALMKAFGATHNAIFV 240
Cdd:PRK11062 161 FSKKLGECGVSFFCTNPLPEKPFPACLEERRLLIPGRRTMLGRKLLNWFNSQGLNVEILGEFDDAALMKAFGAYHDAIFV 240

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 740851815 241 APTLYSNNFYADDSIVEIGRVENVMEEYHAIFAERMIQHPAVQRICNADYSALFTP 296
Cdd:PRK11062 241 APSLYAQDFYADHSVVEIGRVDNVKEEYHVIFAERMIQHPAVQRICNTDFSALFSG 296
PBP2_NhaR cd08429
The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA ...
 94-294 7.74e-118

The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; NhaR is a positive regulator of the LysR family and is known to be an activator of the nhaA gene encoding a Na(+)/H(+) antiporter. In Escherichia coli, NhaA is the vital antiporter that protects against high sodium stress, and it is essential for growth in high sodium levels, while NhaB becomes essential only if NhaA is not available. The nhaA gene of nhaAR operon is induced by monovalent cations. The nhaR of the operon activates nhaAR, as well as the osmC transcription which is induced at elevated osmolarity. OsmC is transcribed from the two overlapping promoters (osmCp1 and osmP2) and that NhaR is shown to activate only the expression of osmCp1. NhaR also activates the transcription of the pgaABCD operon which is required for production of the biofilm adhesion, poly-beta-1,6-N-acetyl-d-glucosamine (PGA) .Thus, it is suggested that NhaR has an extended role in promoting bacterial survival. This substrate-binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 176120 [Multi-domain]  Cd Length: 204  Bit Score: 336.98  E-value: 7.74e-118
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  94 LFDVGVADALSKQLVSRVLNAAVVEDEQIHLRCFESTHEMLLDQLSQHKLDMIISDCPIDSTQQEGLFSVRIGECGVSFW 173
Cdd:cd08429    1 LFRVGVADAVPKSIAYRLLEPAMDLHEPIRLVCREGKLEQLLADLALHRLDMVLADRPMPSSLDVKGYSHRLGECGVSFF 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815 174 CTQPLP---EKPFPACLEERRLLIPGRRSMLGRKLLNWINSQGLNVEILGEFDDAALMKAFGATHNAIFVAPTLYSNNFY 250
Cdd:cd08429   81 AAPPLAkrlEKPFPASLDEAPLLLPGEDSALRRKLLQWFERQGLRPQIVGEFDDSALMKAFGQAGAGIFAAPTVIADEVA 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 740851815 251 ADDSIVEIGRVENVMEEYHAIFAERMIQHPAVQRICNADYSALF 294
Cdd:cd08429  161 RQYGVVEIGRTDEVVEEFYAISVERRITHPAVVAISEAARSALF 204
LysR COG0583
DNA-binding transcriptional regulator, LysR family [Transcription];
4-284 1.55e-31

DNA-binding transcriptional regulator, LysR family [Transcription];


Pssm-ID: 440348 [Multi-domain]  Cd Length: 256  Bit Score: 118.05  E-value: 1.55e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815   4 INYNHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMFTLSQEMLD 83
Cdd:COG0583    1 MDLRQLRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  84 IV-NYRKESNLLFDVGVADALSKQLVSRVLNAAVVEDEQIHLRCFESTHEMLLDQLSQHKLDMIISDCPIDstqQEGLFS 162
Cdd:COG0583   81 ELrALRGGPRGTLRIGAPPSLARYLLPPLLARFRARHPGVRLELREGNSDRLVDALLEGELDLAIRLGPPP---DPGLVA 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815 163 VRIGECGVSFWCTQPLPekpfpacLEERRLLipgrrsmlgrkllnwinsqglnveilgeFDDAALMKAFGATHNAIFVAP 242
Cdd:COG0583  158 RPLGEERLVLVASPDHP-------LARRAPL----------------------------VNSLEALLAAVAAGLGIALLP 202

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|...
gi 740851815 243 TLYSNNFYADDSIVEIG-RVENVMEEYHAIFAERMIQHPAVQR 284
Cdd:COG0583  203 RFLAADELAAGRLVALPlPDPPPPRPLYLVWRRRRHLSPAVRA 245
HTH_1 pfam00126
Bacterial regulatory helix-turn-helix protein, lysR family;
7-65 5.40e-18

Bacterial regulatory helix-turn-helix protein, lysR family;


Pssm-ID: 459683 [Multi-domain]  Cd Length: 60  Bit Score: 76.27  E-value: 5.40e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 740851815    7 NHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGE 65
Cdd:pfam00126   2 RQLRLFVAVAETGSFTAAAERLGLSQPAVSRQIKRLEEELGVPLFERTTRGVRLTEAGE 60
PBP2_LTTR_substrate cd05466
The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the ...
 97-284 1.61e-11

The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; This model and hierarchy represent the the substrate-binding domain of the LysR-type transcriptional regulators that form the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functional roles including amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, oxidative stress responses, nodule formation of nitrogen-fixing bacteria, synthesis of virulence factors, toxin production, attachment and secretion, to name a few. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. Besides transport proteins, the PBP2 superfamily includes the substrate-binding domains from ionotropic glutamate receptors, LysR-like transcriptional regulators, and unorthodox sensor proteins involved in signal transduction.


Pssm-ID: 176102 [Multi-domain]  Cd Length: 197  Bit Score: 62.23  E-value: 1.61e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  97 VGVADALSKQLVSRVLNAAVVEDEQIHLRCFESTHEMLLDQLSQHKLDMIISDCPIDstqQEGLFSVRIGECGVSFWCTQ 176
Cdd:cd05466    4 IGASPSIAAYLLPPLLAAFRQRYPGVELSLVEGGSSELLEALLEGELDLAIVALPVD---DPGLESEPLFEEPLVLVVPP 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815 177 --PLPEKPF--PACLEERRLLIPGRRSMLGRKLLNWINSQGLNVEILGEFDDAALMKAFGATHNAIFVAPTLYSnNFYAD 252
Cdd:cd05466   81 dhPLAKRKSvtLADLADEPLILFERGSGLRRLLDRAFAEAGFTPNIALEVDSLEAIKALVAAGLGIALLPESAV-EELAD 159

                        170       180       190
                 ....*....|....*....|....*....|...
gi 740851815 253 DSIVEIGRVENVME-EYHAIFAERMIQHPAVQR 284
Cdd:cd05466  160 GGLVVLPLEDPPLSrTIGLVWRKGRYLSPAARA 192
rbcR CHL00180
LysR transcriptional regulator; Provisional
 15-112 1.83e-10

LysR transcriptional regulator; Provisional


Pssm-ID: 177082 [Multi-domain]  Cd Length: 305  Bit Score: 60.42  E-value: 1.83e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  15 VYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMFTLSQE----MLDIVNYRKe 90
Cdd:CHL00180  16 IATEGSFKKAAESLYISQPAVSLQIKNLEKQLNIPLFDRSKNKASLTEAGELLLRYGNRILALCEEtcraLEDLKNLQR- 94

                         90       100
                 ....*....|....*....|..
gi 740851815  91 SNLLfdVGVADALSKQLVSRVL 112
Cdd:CHL00180  95 GTLI--IGASQTTGTYLMPRLI 114
PRK09791 PRK09791
LysR family transcriptional regulator;
2-147 4.06e-09

LysR family transcriptional regulator;


Pssm-ID: 182077 [Multi-domain]  Cd Length: 302  Bit Score: 56.69  E-value: 4.06e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815   2 SHINYNHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMFT---LS 78
Cdd:PRK09791   3 FQVKIHQIRAFVEVARQGSIRGASRMLNMSQPALTKSIQELEEGLAAQLFFRRSKGVTLTDAGESFYQHASLILEelrAA 82

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 740851815  79 QEmlDIVNYRKESNLLFDVGVADALSKQLVSRVLNAAVVEDEQIHLRCFESTHEMLLDQLSQHKLDMII 147
Cdd:PRK09791  83 QE--DIRQRQGQLAGQINIGMGASIARSLMPAVISRFHQQHPQVKVRIMEGQLVSMINELRQGELDFTI 149
PRK11242 PRK11242
DNA-binding transcriptional regulator CynR; Provisional
 8-71 2.24e-08

DNA-binding transcriptional regulator CynR; Provisional


Pssm-ID: 183051 [Multi-domain]  Cd Length: 296  Bit Score: 54.19  E-value: 2.24e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 740851815   8 HLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYA 71
Cdd:PRK11242   5 HIRYFLAVAEHGNFTRAAEALHVSQPTLSQQIRQLEESLGVQLFDRSGRTVRLTDAGEVYLRYA 68
PRK10086 PRK10086
DNA-binding transcriptional regulator DsdC;
9-86 7.13e-08

DNA-binding transcriptional regulator DsdC;


Pssm-ID: 182231 [Multi-domain]  Cd Length: 311  Bit Score: 52.70  E-value: 7.13e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 740851815   9 LYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVF-RYADKMFTLSQEMLDIVN 86
Cdd:PRK10086  19 LHTFEVAARHQSFALAADELSLTPSAVSHRINQLEEELGIKLFVRSHRKVELTEEGKRVFwALKSSLDTLNQEILDIKN 97
PRK11139 PRK11139
DNA-binding transcriptional activator GcvA; Provisional
 24-72 1.32e-07

DNA-binding transcriptional activator GcvA; Provisional


Pssm-ID: 182990 [Multi-domain]  Cd Length: 297  Bit Score: 51.77  E-value: 1.32e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 740851815  24 AAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGElvfRYAD 72
Cdd:PRK11139  26 AAEELFVTQAAVSHQIKALEDFLGLKLFRRRNRSLLLTEEGQ---RYFL 71
LysR_substrate pfam03466
LysR substrate binding domain; The structure of this domain is known and is similar to the ...
 97-284 2.07e-06

LysR substrate binding domain; The structure of this domain is known and is similar to the periplasmic binding proteins. This domain binds a variety of ligands that caries in size and structure, such as amino acids, sugar phosphates, organic acids, metal cations, flavonoids, C6-ring carboxylic acids, H2O2, HOCl, homocysteine, NADPH, ATP, sulphate, muropeptides, acetate, salicylate, citrate, phenol- and quinolone derivatives, acetylserines, fatty acid CoA, shikimate, chorismate, homocysteine, indole-3-acetic acid, Na(I), c-di-GMP, ppGpp and hydrogen peroxide (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 460931 [Multi-domain]  Cd Length: 205  Bit Score: 47.67  E-value: 2.07e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815   97 VGVADALSKQLVSRVLNAAVVEDEQIHLRCFESTHEMLLDQLSQHKLDMIISDCPIDStqqEGLFSVRIGECGVSFWCTQ 176
Cdd:pfam03466   6 IGAPPTLASYLLPPLLARFRERYPDVELELTEGNSEELLDLLLEGELDLAIRRGPPDD---PGLEARPLGEEPLVLVAPP 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  177 --PLPEKPF--PACLEERRLLIPGRRSMLGRKLLNWINSQGLNVEILGEFDDAALMKAFGATHNAIFVAPTLYSNNFYAD 252
Cdd:pfam03466  83 dhPLARGEPvsLEDLADEPLILLPPGSGLRDLLDRALRAAGLRPRVVLEVNSLEALLQLVAAGLGIALLPRSAVARELAD 162

                         170       180       190
                  ....*....|....*....|....*....|...
gi 740851815  253 DSIVEI-GRVENVMEEYHAIFAERMIQHPAVQR 284
Cdd:pfam03466 163 GRLVALpLPEPPLPRELYLVWRKGRPLSPAVRA 195
PRK11233 PRK11233
nitrogen assimilation transcriptional regulator; Provisional
 4-234 7.47e-06

nitrogen assimilation transcriptional regulator; Provisional


Pssm-ID: 183045 [Multi-domain]  Cd Length: 305  Bit Score: 46.60  E-value: 7.47e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815   4 INYNHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMF-TLSQEML 82
Cdd:PRK11233   1 MNFRRLKYFVKIVDIGSLTQAAEVLHIAQPALSQQVATLEGELNQQLLIRTKRGVTPTEAGKILYTHARAILrQCEQAQL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  83 DIVNYRKESNLLFDVGVADALSKQLVSRVLNAAVVED-EQIHLRCFESTHEMLLDQLSQHKLDM--IISDCPIDSTQ--- 156
Cdd:PRK11233  81 AVHNVGQALSGQVSIGLAPGTAASSLTMPLLQAVRAEfPGIVLYLHENSGATLNEKLMNGQLDMavIYEHSPVAGLSsqp 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815 157 --QEGLFSVrigecgvsfwCTQPLPEKPFP-ACLEERRLLIPGRRSMLGRKLLNWINSQGLNVEILGEFDDAALMKA--- 230
Cdd:PRK11233 161 llKEDLFLV----------GTQDCPGQSVDlAAVAQMNLFLPRDYSAVRLRVDEAFSLRRLTAKVIGEIESIATLTAaia 230


                 ....*.
gi 740851815 231 --FGAT 234
Cdd:PRK11233 231 sgMGVT 236
PRK09801 PRK09801
LysR family transcriptional regulator;
19-149 8.31e-06

LysR family transcriptional regulator;


Pssm-ID: 182085 [Multi-domain]  Cd Length: 310  Bit Score: 46.57  E-value: 8.31e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  19 GSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMFTLSQEMLD-IVNYRKESNLLFDV 97
Cdd:PRK09801  21 GSFSAAAATLGQTPAFVTKRIQILENTLATTLLNRSARGVALTESGQRCYEHALEILTQYQRLVDdVTQIKTRPEGMIRI 100

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 740851815  98 GVADALSKQLVSRVLNAAV--VEDEQIHLRCFESTHEMLLDQLSqhkLDMIISD 149
Cdd:PRK09801 101 GCSFGFGRSHIAPAITELMrnYPELQVHFELFDRQIDLVQDNID---LDIRIND 151
PRK13348 PRK13348
HTH-type transcriptional regulator ArgP;
3-71 1.17e-05

HTH-type transcriptional regulator ArgP;


Pssm-ID: 237357 [Multi-domain]  Cd Length: 294  Bit Score: 46.12  E-value: 1.17e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 740851815   3 HINYNHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRkGRGLEPSELGELVFRYA 71
Cdd:PRK13348   1 MLDYKQLEALAAVVETGSFERAARRLHVTPSAVSQRIKALEESLGQPLLVR-GRPCRPTPAGQRLLRHL 68
PRK03635 PRK03635
ArgP/LysG family DNA-binding transcriptional regulator;
15-82 1.61e-05

ArgP/LysG family DNA-binding transcriptional regulator;


Pssm-ID: 235144 [Multi-domain]  Cd Length: 294  Bit Score: 45.53  E-value: 1.61e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 740851815  15 VYKEGSVVGAAEALYLTPQTITGQIKALEERLqGKLFKRKGRGLEPSELGELVFRYADKMFTLSQEML 82
Cdd:PRK03635  13 VVREGSFERAAQKLHITQSAVSQRIKALEERV-GQVLLVRTQPCRPTEAGQRLLRHARQVRLLEAELL 79
PRK10094 PRK10094
HTH-type transcriptional activator AllS;
12-104 2.21e-05

HTH-type transcriptional activator AllS;


Pssm-ID: 182237 [Multi-domain]  Cd Length: 308  Bit Score: 45.18  E-value: 2.21e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  12 FWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMFTLSQEM---LDIVNYR 88
Cdd:PRK10094  10 FIAVAETGSFSKAAERLCKTTATISYRIKLLEENTGVALFFRTTRSVTLTAAGEHLLSQARDWLSWLESMpseLQQVNDG 89

                         90       100
                 ....*....|....*....|....
gi 740851815  89 KE-------SNLLFD-VGVADALS 104
Cdd:PRK10094  90 VErqvniviNNLLYNpQAVAQLLA 113
PRK15421 PRK15421
HTH-type transcriptional regulator MetR;
4-93 1.31e-04

HTH-type transcriptional regulator MetR;


Pssm-ID: 185319 [Multi-domain]  Cd Length: 317  Bit Score: 43.08  E-value: 1.31e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815   4 INYNHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMFTLSQEMLD 83
Cdd:PRK15421   2 IEVKHLKTLQALRNCGSLAAAAATLHQTQSALSHQFSDLEQRLGFRLFVRKSQPLRFTPQGEILLQLANQVLPQISQALQ 81

                         90
                 ....*....|
gi 740851815  84 IVNYRKESNL 93
Cdd:PRK15421  82 ACNEPQQTRL 91
PRK14997 PRK14997
LysR family transcriptional regulator; Provisional
 7-85 1.80e-04

LysR family transcriptional regulator; Provisional


Pssm-ID: 184959 [Multi-domain]  Cd Length: 301  Bit Score: 42.28  E-value: 1.80e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 740851815   7 NHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMFTLSQEMLDIV 85
Cdd:PRK14997   5 NDFAWFVHVVEEGGFAAAGRALDEPKSKLSRRIAQLEERLGVRLIQRTTRQFNVTEVGQTFYEHCKAMLVEAQAAQDAI 83
PRK12682 PRK12682
transcriptional regulator CysB-like protein; Reviewed
 4-92 3.80e-04

transcriptional regulator CysB-like protein; Reviewed


Pssm-ID: 183679 [Multi-domain]  Cd Length: 309  Bit Score: 41.52  E-value: 3.80e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815   4 INYNHLYYFWHVYKEG-SVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEP-SELGELVFRYADKMftlsqeM 81
Cdd:PRK12682   1 MNLQQLRFVREAVRRNlNLTEAAKALHTSQPGVSKAIIELEEELGIEIFIRHGKRLKGlTEPGKAVLDVIERI------L 74

                         90
                 ....*....|.
gi 740851815  82 LDIVNYRKESN 92
Cdd:PRK12682  75 REVGNIKRIGD 85
PRK10341 PRK10341
transcriptional regulator TdcA;
8-101 4.90e-04

transcriptional regulator TdcA;


Pssm-ID: 182391 [Multi-domain]  Cd Length: 312  Bit Score: 41.00  E-value: 4.90e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815   8 HLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADkmfTLSQEMLDIVNy 87
Cdd:PRK10341  11 HLVVFQEVIRSGSIGSAAKELGLTQPAVSKIINDIEDYFGVELIVRKNTGVTLTPAGQVLLSRSE---SITREMKNMVN- 86

                         90
                 ....*....|....
gi 740851815  88 rkESNLLFDVGVAD 101
Cdd:PRK10341  87 --EINGMSSEAVVD 98
PRK11482 PRK11482
DNA-binding transcriptional regulator;
4-61 1.12e-03

DNA-binding transcriptional regulator;


Pssm-ID: 183159 [Multi-domain]  Cd Length: 317  Bit Score: 40.09  E-value: 1.12e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 740851815   4 INYNHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPS 61
Cdd:PRK11482  29 IDLNLLTIFEAVYVHKGIVNAAKILNLTPSAISQSIQKLRVIFPDPLFIRKGQGVTPT 86
PRK03601 PRK03601
HTH-type transcriptional regulator HdfR;
24-177 3.57e-03

HTH-type transcriptional regulator HdfR;


Pssm-ID: 235137 [Multi-domain]  Cd Length: 275  Bit Score: 38.46  E-value: 3.57e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  24 AAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMFTLSQEMLDIVNYRKESNlLFDVGVADAL 103
Cdd:PRK03601  21 AAESLYLTQSAVSFRIRQLENQLGVNLFTRHRNNIRLTAAGERLLPYAETLMNTWQAAKKEVAHTSQHN-ELSIGASASL 99

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 740851815 104 SKQLVSRVLNAAVVEDEQIHLRCFESTHEMLLDQLSQHKLDMIISdcpIDSTQQEGLFSVRIGECGVSFWCTQP 177
Cdd:PRK03601 100 WECMLTPWLGRLYQNQEALQFEARIAQRQSLVKQLHERQLDLLIT---TEAPKMDEFSSQLLGHFTLALYTSAP 170
PRK09906 PRK09906
DNA-binding transcriptional regulator HcaR; Provisional
 8-79 5.48e-03

DNA-binding transcriptional regulator HcaR; Provisional


Pssm-ID: 182137 [Multi-domain]  Cd Length: 296  Bit Score: 37.83  E-value: 5.48e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 740851815   8 HLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYAdkMFTLSQ 79
Cdd:PRK09906   5 HLRYFVAVAEELNFTKAAEKLHTAQPSLSQQIKDLENCVGVPLLVRDKRKVALTAAGEVFLQDA--RAILEQ 74
PRK10837 PRK10837
putative DNA-binding transcriptional regulator; Provisional
 3-68 6.36e-03

putative DNA-binding transcriptional regulator; Provisional


Pssm-ID: 182768 [Multi-domain]  Cd Length: 290  Bit Score: 37.75  E-value: 6.36e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 740851815   3 HINYNHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVF 68
Cdd:PRK10837   2 HITLRQLEVFAEVLKSGSTTQASVMLALSQSAVSAALTDLEGQLGVQLFDRVGKRLVVNEHGRLLY 67
PRK12683 PRK12683
transcriptional regulator CysB-like protein; Reviewed
 24-89 7.16e-03

transcriptional regulator CysB-like protein; Reviewed


Pssm-ID: 237172 [Multi-domain]  Cd Length: 309  Bit Score: 37.33  E-value: 7.16e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815  24 AAEALYLTPQTITGQIKALEERLQGKLFKRKGRGL----EPselGELVFRYADKMftlsqeMLDIVNYRK 89
Cdd:PRK12683  22 VANALYTSQSGVSKQIKDLEDELGVEIFIRRGKRLtgltEP---GKELLQIVERM------LLDAENLRR 82
PRK15243 PRK15243
virulence genes transcriptional activator SpvR;
9-119 9.15e-03

virulence genes transcriptional activator SpvR;


Pssm-ID: 185155 [Multi-domain]  Cd Length: 297  Bit Score: 36.96  E-value: 9.15e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 740851815   9 LYYFWHVYKEGSVVGAAEALYLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADKMF----TLSQEmLDI 84
Cdd:PRK15243   9 LKIFITLMETGSFSIATSVLYITRTPLSRVISDLERELKQRLFIRKNGTLIPTEFAQTIYRKVKSHYiflhALEQE-IGP 87

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 740851815  85 VNYRKESNLLFDVGVADALSKQLVS-------------RVLNAAVVED 119
Cdd:PRK15243  88 TGKTKQLEIIFDEIYPESLKNLIISaltisgqktnimgRAVNSQIIEE 135
 
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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