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Conserved domains on  [gi|2090925031|gb|UAD18073|]
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transcriptional activator NhaR [Klebsiella quasipneumoniae]

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: 666.71  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031   1 MSHINYNHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMFTLSQE 80
Cdd:PRK11062    1 MSHINYNHLYYFWMVCKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPTELGELVFRYADKMFTLSQE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  81 MLDIVNYRKESNLLFDVGVADALSKRLVSGVLDAAVVESEQIHLRCFESTHELLLEQLSQHKLDMIISDCPIDSTQQEGL 160
Cdd:PRK11062   81 MLDIVNYRKESNLLFDVGVADALSKRLVSRVLLTAVPEDESIHLRCFESTHEMLLEQLSQHKLDMILSDCPVDSTQQEGL 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031 161 FSVKIGECSVSFWCMNPAPTKPFPACLEERRLLIPGRRSMLGRKLLNWINVQGLKVEILGEFDDAALMKAFGAAHNAIFV 240
Cdd:PRK11062  161 FSKKLGECGVSFFCTNPLPEKPFPACLEERRLLIPGRRTMLGRKLLNWFNSQGLNVEILGEFDDAALMKAFGAYHDAIFV 240

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2090925031 241 APTLYAHDFYHDESIVEIGRMDSVMEEYHAIFAERMIQHPAVQRICNRDYSSLFTE 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: 666.71  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031   1 MSHINYNHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMFTLSQE 80
Cdd:PRK11062    1 MSHINYNHLYYFWMVCKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPTELGELVFRYADKMFTLSQE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  81 MLDIVNYRKESNLLFDVGVADALSKRLVSGVLDAAVVESEQIHLRCFESTHELLLEQLSQHKLDMIISDCPIDSTQQEGL 160
Cdd:PRK11062   81 MLDIVNYRKESNLLFDVGVADALSKRLVSRVLLTAVPEDESIHLRCFESTHEMLLEQLSQHKLDMILSDCPVDSTQQEGL 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031 161 FSVKIGECSVSFWCMNPAPTKPFPACLEERRLLIPGRRSMLGRKLLNWINVQGLKVEILGEFDDAALMKAFGAAHNAIFV 240
Cdd:PRK11062  161 FSKKLGECGVSFFCTNPLPEKPFPACLEERRLLIPGRRTMLGRKLLNWFNSQGLNVEILGEFDDAALMKAFGAYHDAIFV 240

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2090925031 241 APTLYAHDFYHDESIVEIGRMDSVMEEYHAIFAERMIQHPAVQRICNRDYSSLFTE 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 1.43e-111

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: 321.19  E-value: 1.43e-111
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  94 LFDVGVADALSKRLVSGVLDAAVVESEQIHLRCFESTHELLLEQLSQHKLDMIISDCPIDSTQQEGLFSVKIGECSVSFW 173
Cdd:cd08429     1 LFRVGVADAVPKSIAYRLLEPAMDLHEPIRLVCREGKLEQLLADLALHRLDMVLADRPMPSSLDVKGYSHRLGECGVSFF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031 174 CMNPAPT---KPFPACLEERRLLIPGRRSMLGRKLLNWINVQGLKVEILGEFDDAALMKAFGAAHNAIFVAPTLYAHDFY 250
Cdd:cd08429    81 AAPPLAKrleKPFPASLDEAPLLLPGEDSALRRKLLQWFERQGLRPQIVGEFDDSALMKAFGQAGAGIFAAPTVIADEVA 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 2090925031 251 HDESIVEIGRMDSVMEEYHAIFAERMIQHPAVQRICNRDYSSLF 294
Cdd:cd08429   161 RQYGVVEIGRTDEVVEEFYAISVERRITHPAVVAISEAARSALF 204
LysR COG0583
DNA-binding transcriptional regulator, LysR family [Transcription];
4-284 1.41e-31

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


Pssm-ID: 440348 [Multi-domain]  Cd Length: 256  Bit Score: 118.05  E-value: 1.41e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031   4 INYNHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMFTLSQEMLD 83
Cdd:COG0583     1 MDLRQLRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  84 IV-NYRKESNLLFDVGVADALSKRLVSGVLDAAVVESEQIHLRCFESTHELLLEQLSQHKLDMIISDCPIDstqQEGLFS 162
Cdd:COG0583    81 ELrALRGGPRGTLRIGAPPSLARYLLPPLLARFRARHPGVRLELREGNSDRLVDALLEGELDLAIRLGPPP---DPGLVA 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031 163 VKIGECSVSFWCmnpAPTKPfpacLEERRLLipgrrsmlgrkllnwinvqglkveilgeFDDAALMKAFGAAHNAIFVAP 242
Cdd:COG0583   158 RPLGEERLVLVA---SPDHP----LARRAPL----------------------------VNSLEALLAAVAAGLGIALLP 202

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 2090925031 243 TLYAHDFYHDESIVEIGRMD-SVMEEYHAIFAERMIQHPAVQR 284
Cdd:COG0583   203 RFLAADELAAGRLVALPLPDpPPPRPLYLVWRRRRHLSPAVRA 245
HTH_1 pfam00126
Bacterial regulatory helix-turn-helix protein, lysR family;
7-65 1.16e-17

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


Pssm-ID: 459683 [Multi-domain]  Cd Length: 60  Bit Score: 75.11  E-value: 1.16e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2090925031   7 NHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGE 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: 666.71  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031   1 MSHINYNHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMFTLSQE 80
Cdd:PRK11062    1 MSHINYNHLYYFWMVCKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPTELGELVFRYADKMFTLSQE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  81 MLDIVNYRKESNLLFDVGVADALSKRLVSGVLDAAVVESEQIHLRCFESTHELLLEQLSQHKLDMIISDCPIDSTQQEGL 160
Cdd:PRK11062   81 MLDIVNYRKESNLLFDVGVADALSKRLVSRVLLTAVPEDESIHLRCFESTHEMLLEQLSQHKLDMILSDCPVDSTQQEGL 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031 161 FSVKIGECSVSFWCMNPAPTKPFPACLEERRLLIPGRRSMLGRKLLNWINVQGLKVEILGEFDDAALMKAFGAAHNAIFV 240
Cdd:PRK11062  161 FSKKLGECGVSFFCTNPLPEKPFPACLEERRLLIPGRRTMLGRKLLNWFNSQGLNVEILGEFDDAALMKAFGAYHDAIFV 240

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2090925031 241 APTLYAHDFYHDESIVEIGRMDSVMEEYHAIFAERMIQHPAVQRICNRDYSSLFTE 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 1.43e-111

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: 321.19  E-value: 1.43e-111
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  94 LFDVGVADALSKRLVSGVLDAAVVESEQIHLRCFESTHELLLEQLSQHKLDMIISDCPIDSTQQEGLFSVKIGECSVSFW 173
Cdd:cd08429     1 LFRVGVADAVPKSIAYRLLEPAMDLHEPIRLVCREGKLEQLLADLALHRLDMVLADRPMPSSLDVKGYSHRLGECGVSFF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031 174 CMNPAPT---KPFPACLEERRLLIPGRRSMLGRKLLNWINVQGLKVEILGEFDDAALMKAFGAAHNAIFVAPTLYAHDFY 250
Cdd:cd08429    81 AAPPLAKrleKPFPASLDEAPLLLPGEDSALRRKLLQWFERQGLRPQIVGEFDDSALMKAFGQAGAGIFAAPTVIADEVA 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 2090925031 251 HDESIVEIGRMDSVMEEYHAIFAERMIQHPAVQRICNRDYSSLF 294
Cdd:cd08429   161 RQYGVVEIGRTDEVVEEFYAISVERRITHPAVVAISEAARSALF 204
LysR COG0583
DNA-binding transcriptional regulator, LysR family [Transcription];
4-284 1.41e-31

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


Pssm-ID: 440348 [Multi-domain]  Cd Length: 256  Bit Score: 118.05  E-value: 1.41e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031   4 INYNHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMFTLSQEMLD 83
Cdd:COG0583     1 MDLRQLRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  84 IV-NYRKESNLLFDVGVADALSKRLVSGVLDAAVVESEQIHLRCFESTHELLLEQLSQHKLDMIISDCPIDstqQEGLFS 162
Cdd:COG0583    81 ELrALRGGPRGTLRIGAPPSLARYLLPPLLARFRARHPGVRLELREGNSDRLVDALLEGELDLAIRLGPPP---DPGLVA 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031 163 VKIGECSVSFWCmnpAPTKPfpacLEERRLLipgrrsmlgrkllnwinvqglkveilgeFDDAALMKAFGAAHNAIFVAP 242
Cdd:COG0583   158 RPLGEERLVLVA---SPDHP----LARRAPL----------------------------VNSLEALLAAVAAGLGIALLP 202

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 2090925031 243 TLYAHDFYHDESIVEIGRMD-SVMEEYHAIFAERMIQHPAVQR 284
Cdd:COG0583   203 RFLAADELAAGRLVALPLPDpPPPRPLYLVWRRRRHLSPAVRA 245
HTH_1 pfam00126
Bacterial regulatory helix-turn-helix protein, lysR family;
7-65 1.16e-17

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


Pssm-ID: 459683 [Multi-domain]  Cd Length: 60  Bit Score: 75.11  E-value: 1.16e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2090925031   7 NHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGE 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 2.81e-12

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: 64.16  E-value: 2.81e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  97 VGVADALSKRLVSGVLDAAVVESEQIHLRCFESTHELLLEQLSQHKLDMIISDCPIDstqQEGLFSVKIGECSVSFWCmn 176
Cdd:cd05466     4 IGASPSIAAYLLPPLLAAFRQRYPGVELSLVEGGSSELLEALLEGELDLAIVALPVD---DPGLESEPLFEEPLVLVV-- 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031 177 pAPTKPF-------PACLEERRLLIPGRRSMLGRKLLNWINVQGLKVEILGEFDDAALMKAFGAAHNAIFVAPTLYAHDf 249
Cdd:cd05466    79 -PPDHPLakrksvtLADLADEPLILFERGSGLRRLLDRAFAEAGFTPNIALEVDSLEAIKALVAAGLGIALLPESAVEE- 156

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 2090925031 250 YHDESIVEIG-RMDSVMEEYHAIFAERMIQHPAVQR 284
Cdd:cd05466   157 LADGGLVVLPlEDPPLSRTIGLVWRKGRYLSPAARA 192
rbcR CHL00180
LysR transcriptional regulator; Provisional
 15-80 3.65e-10

LysR transcriptional regulator; Provisional


Pssm-ID: 177082 [Multi-domain]  Cd Length: 305  Bit Score: 59.65  E-value: 3.65e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2090925031  15 VYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMFTLSQE 80
Cdd:CHL00180   16 IATEGSFKKAAESLYISQPAVSLQIKNLEKQLNIPLFDRSKNKASLTEAGELLLRYGNRILALCEE 81
PRK11139 PRK11139
DNA-binding transcriptional activator GcvA; Provisional
 24-73 2.37e-08

DNA-binding transcriptional activator GcvA; Provisional


Pssm-ID: 182990 [Multi-domain]  Cd Length: 297  Bit Score: 54.08  E-value: 2.37e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 2090925031  24 AAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGElvfRYADR 73
Cdd:PRK11139   26 AAEELFVTQAAVSHQIKALEDFLGLKLFRRRNRSLLLTEEGQ---RYFLD 72
PRK09791 PRK09791
LysR family transcriptional regulator;
2-147 2.72e-08

LysR family transcriptional regulator;


Pssm-ID: 182077 [Multi-domain]  Cd Length: 302  Bit Score: 54.00  E-value: 2.72e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031   2 SHINYNHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMFT---LS 78
Cdd:PRK09791    3 FQVKIHQIRAFVEVARQGSIRGASRMLNMSQPALTKSIQELEEGLAAQLFFRRSKGVTLTDAGESFYQHASLILEelrAA 82

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2090925031  79 QEmlDIVNYRKESNLLFDVGVADALSKRLVSGVLDAAVVESEQIHLRCFESTHELLLEQLSQHKLDMII 147
Cdd:PRK09791   83 QE--DIRQRQGQLAGQINIGMGASIARSLMPAVISRFHQQHPQVKVRIMEGQLVSMINELRQGELDFTI 149
PRK11242 PRK11242
DNA-binding transcriptional regulator CynR; Provisional
 8-73 3.49e-08

DNA-binding transcriptional regulator CynR; Provisional


Pssm-ID: 183051 [Multi-domain]  Cd Length: 296  Bit Score: 53.81  E-value: 3.49e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2090925031   8 HLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADR 73
Cdd:PRK11242    5 HIRYFLAVAEHGNFTRAAEALHVSQPTLSQQIRQLEESLGVQLFDRSGRTVRLTDAGEVYLRYARR 70
PRK10086 PRK10086
DNA-binding transcriptional regulator DsdC;
9-86 1.15e-07

DNA-binding transcriptional regulator DsdC;


Pssm-ID: 182231 [Multi-domain]  Cd Length: 311  Bit Score: 52.31  E-value: 1.15e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2090925031   9 LYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVF-RYADRMFTLSQEMLDIVN 86
Cdd:PRK10086   19 LHTFEVAARHQSFALAADELSLTPSAVSHRINQLEEELGIKLFVRSHRKVELTEEGKRVFwALKSSLDTLNQEILDIKN 97
PRK03635 PRK03635
ArgP/LysG family DNA-binding transcriptional regulator;
15-82 9.59e-06

ArgP/LysG family DNA-binding transcriptional regulator;


Pssm-ID: 235144 [Multi-domain]  Cd Length: 294  Bit Score: 46.31  E-value: 9.59e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2090925031  15 VYKEGSVVGAAEALFLTPQTITGQIKALEERLqGKLFKRKGRGLEPSELGELVFRYADRMFTLSQEML 82
Cdd:PRK03635   13 VVREGSFERAAQKLHITQSAVSQRIKALEERV-GQVLLVRTQPCRPTEAGQRLLRHARQVRLLEAELL 79
LysR_substrate pfam03466
LysR substrate binding domain; The structure of this domain is known and is similar to the ...
 97-284 9.86e-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: 45.36  E-value: 9.86e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  97 VGVADALSKRLVSGVLDAAVVESEQIHLRCFESTHELLLEQLSQHKLDMIISDCPIDStqqEGLFSVKIGECSVsFWCMN 176
Cdd:pfam03466   6 IGAPPTLASYLLPPLLARFRERYPDVELELTEGNSEELLDLLLEGELDLAIRRGPPDD---PGLEARPLGEEPL-VLVAP 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031 177 P----APTKPF-PACLEERRLLIPGRRSMLGRKLLNWINVQGLKVEILGEFDDAALMKAFGAAHNAIFVAPTLYAHDFYH 251
Cdd:pfam03466  82 PdhplARGEPVsLEDLADEPLILLPPGSGLRDLLDRALRAAGLRPRVVLEVNSLEALLQLVAAGLGIALLPRSAVARELA 161

                         170       180       190
                  ....*....|....*....|....*....|....
gi 2090925031 252 DESIVEI-GRMDSVMEEYHAIFAERMIQHPAVQR 284
Cdd:pfam03466 162 DGRLVALpLPEPPLPRELYLVWRKGRPLSPAVRA 195
PRK13348 PRK13348
HTH-type transcriptional regulator ArgP;
3-74 1.08e-05

HTH-type transcriptional regulator ArgP;


Pssm-ID: 237357 [Multi-domain]  Cd Length: 294  Bit Score: 46.12  E-value: 1.08e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2090925031   3 HINYNHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRkGRGLEPSELGELVFRYADRM 74
Cdd:PRK13348    1 MLDYKQLEALAAVVETGSFERAARRLHVTPSAVSQRIKALEESLGQPLLVR-GRPCRPTPAGQRLLRHLRQV 71
PRK11233 PRK11233
nitrogen assimilation transcriptional regulator; Provisional
 4-242 3.08e-05

nitrogen assimilation transcriptional regulator; Provisional


Pssm-ID: 183045 [Multi-domain]  Cd Length: 305  Bit Score: 44.67  E-value: 3.08e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031   4 INYNHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMF-TLSQEML 82
Cdd:PRK11233    1 MNFRRLKYFVKIVDIGSLTQAAEVLHIAQPALSQQVATLEGELNQQLLIRTKRGVTPTEAGKILYTHARAILrQCEQAQL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  83 DIVNYRKESNLLFDVGVADALSKRLVSGVLDAAVVES-EQIHLRCFESTHELLLEQLSQHKLDM--IISDCPIDstqqeG 159
Cdd:PRK11233   81 AVHNVGQALSGQVSIGLAPGTAASSLTMPLLQAVRAEfPGIVLYLHENSGATLNEKLMNGQLDMavIYEHSPVA-----G 155

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031 160 LFSVKIGECSVSFWCMNPAPTKPFP-ACLEERRLLIPGRRSMLGRKLLNWINVQGLKVEILGEFDDAALMKAFGAAHNAI 238
Cdd:PRK11233  156 LSSQPLLKEDLFLVGTQDCPGQSVDlAAVAQMNLFLPRDYSAVRLRVDEAFSLRRLTAKVIGEIESIATLTAAIASGMGV 235


                  ....
gi 2090925031 239 FVAP 242
Cdd:PRK11233  236 TVLP 239
PRK09801 PRK09801
LysR family transcriptional regulator;
19-85 5.66e-05

LysR family transcriptional regulator;


Pssm-ID: 182085 [Multi-domain]  Cd Length: 310  Bit Score: 43.87  E-value: 5.66e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2090925031  19 GSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMFTLSQEMLDIV 85
Cdd:PRK09801   21 GSFSAAAATLGQTPAFVTKRIQILENTLATTLLNRSARGVALTESGQRCYEHALEILTQYQRLVDDV 87
PRK10094 PRK10094
HTH-type transcriptional activator AllS;
12-104 9.73e-05

HTH-type transcriptional activator AllS;


Pssm-ID: 182237 [Multi-domain]  Cd Length: 308  Bit Score: 43.26  E-value: 9.73e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  12 FWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMFTLSQEM---LDIVNYR 88
Cdd:PRK10094   10 FIAVAETGSFSKAAERLCKTTATISYRIKLLEENTGVALFFRTTRSVTLTAAGEHLLSQARDWLSWLESMpseLQQVNDG 89

                          90       100
                  ....*....|....*....|....
gi 2090925031  89 KE-------SNLLFD-VGVADALS 104
Cdd:PRK10094   90 VErqvniviNNLLYNpQAVAQLLA 113
PRK12682 PRK12682
transcriptional regulator CysB-like protein; Reviewed
 4-92 1.43e-04

transcriptional regulator CysB-like protein; Reviewed


Pssm-ID: 183679 [Multi-domain]  Cd Length: 309  Bit Score: 42.67  E-value: 1.43e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031   4 INYNHLYYFWHVYKEG-SVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEP-SELGELVFRYADRMftlsqeM 81
Cdd:PRK12682    1 MNLQQLRFVREAVRRNlNLTEAAKALHTSQPGVSKAIIELEEELGIEIFIRHGKRLKGlTEPGKAVLDVIERI------L 74

                          90
                  ....*....|.
gi 2090925031  82 LDIVNYRKESN 92
Cdd:PRK12682   75 REVGNIKRIGD 85
PRK14997 PRK14997
LysR family transcriptional regulator; Provisional
 7-85 3.28e-04

LysR family transcriptional regulator; Provisional


Pssm-ID: 184959 [Multi-domain]  Cd Length: 301  Bit Score: 41.51  E-value: 3.28e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2090925031   7 NHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMFTLSQEMLDIV 85
Cdd:PRK14997    5 NDFAWFVHVVEEGGFAAAGRALDEPKSKLSRRIAQLEERLGVRLIQRTTRQFNVTEVGQTFYEHCKAMLVEAQAAQDAI 83
PRK15421 PRK15421
HTH-type transcriptional regulator MetR;
4-93 3.73e-04

HTH-type transcriptional regulator MetR;


Pssm-ID: 185319 [Multi-domain]  Cd Length: 317  Bit Score: 41.54  E-value: 3.73e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031   4 INYNHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMFTLSQEMLD 83
Cdd:PRK15421    2 IEVKHLKTLQALRNCGSLAAAAATLHQTQSALSHQFSDLEQRLGFRLFVRKSQPLRFTPQGEILLQLANQVLPQISQALQ 81

                          90
                  ....*....|
gi 2090925031  84 IVNYRKESNL 93
Cdd:PRK15421   82 ACNEPQQTRL 91
PRK10341 PRK10341
transcriptional regulator TdcA;
8-101 5.09e-04

transcriptional regulator TdcA;


Pssm-ID: 182391 [Multi-domain]  Cd Length: 312  Bit Score: 41.00  E-value: 5.09e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031   8 HLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADrmfTLSQEMLDIVNy 87
Cdd:PRK10341   11 HLVVFQEVIRSGSIGSAAKELGLTQPAVSKIINDIEDYFGVELIVRKNTGVTLTPAGQVLLSRSE---SITREMKNMVN- 86

                          90
                  ....*....|....
gi 2090925031  88 rkESNLLFDVGVAD 101
Cdd:PRK10341   87 --EINGMSSEAVVD 98
PRK11482 PRK11482
DNA-binding transcriptional regulator;
4-61 1.44e-03

DNA-binding transcriptional regulator;


Pssm-ID: 183159 [Multi-domain]  Cd Length: 317  Bit Score: 39.71  E-value: 1.44e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2090925031   4 INYNHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPS 61
Cdd:PRK11482   29 IDLNLLTIFEAVYVHKGIVNAAKILNLTPSAISQSIQKLRVIFPDPLFIRKGQGVTPT 86
PRK12683 PRK12683
transcriptional regulator CysB-like protein; Reviewed
 24-89 2.14e-03

transcriptional regulator CysB-like protein; Reviewed


Pssm-ID: 237172 [Multi-domain]  Cd Length: 309  Bit Score: 39.26  E-value: 2.14e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  24 AAEALFLTPQTITGQIKALEERLQGKLFKRKGRGL----EPselGELVFRYADRMftlsqeMLDIVNYRK 89
Cdd:PRK12683   22 VANALYTSQSGVSKQIKDLEDELGVEIFIRRGKRLtgltEP---GKELLQIVERM------LLDAENLRR 82
PRK03601 PRK03601
HTH-type transcriptional regulator HdfR;
24-181 7.84e-03

HTH-type transcriptional regulator HdfR;


Pssm-ID: 235137 [Multi-domain]  Cd Length: 275  Bit Score: 37.30  E-value: 7.84e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2090925031  24 AAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVFRYADRMFTLSQEMLDIVNYRKESNlLFDVGVADAL 103
Cdd:PRK03601   21 AAESLYLTQSAVSFRIRQLENQLGVNLFTRHRNNIRLTAAGERLLPYAETLMNTWQAAKKEVAHTSQHN-ELSIGASASL 99

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2090925031 104 SKRLVSGVLDAAVVESEQIHLRCFESTHELLLEQLSQHKLDMIISdcpIDSTQQEGLFSVKIGECSVSFWCMNPAPTK 181
Cdd:PRK03601  100 WECMLTPWLGRLYQNQEALQFEARIAQRQSLVKQLHERQLDLLIT---TEAPKMDEFSSQLLGHFTLALYTSAPSKKK 174
PRK10837 PRK10837
putative DNA-binding transcriptional regulator; Provisional
 3-68 9.14e-03

putative DNA-binding transcriptional regulator; Provisional


Pssm-ID: 182768 [Multi-domain]  Cd Length: 290  Bit Score: 36.97  E-value: 9.14e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2090925031   3 HINYNHLYYFWHVYKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPSELGELVF 68
Cdd:PRK10837    2 HITLRQLEVFAEVLKSGSTTQASVMLALSQSAVSAALTDLEGQLGVQLFDRVGKRLVVNEHGRLLY 67
 
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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