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Conserved domains on  [gi|446646429|ref|WP_000723775|]
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GntR family transcriptional regulator [Salmonella enterica]

Protein Classification

GntR family transcriptional regulator( domain architecture ID 11448455)

GntR-family transcriptional regulator is one of a group of transcriptional regulators with a conserved N-terminal helix-turn-helix DNA-binding domain and a diverse C-terminal effector-binding and oligomerization domain; controls the expression of genes with diverse biological functions

CATH:  1.10.10.10
Gene Ontology:  GO:0003700|GO:0003677
PubMed:  33509775
SCOP:  4000155

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
1-206 2.73e-25

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


:

Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 98.07  E-value: 2.73e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429   1 MKKIQRTQTRDHITQMLRYEILSGNIKAGEELAQESIAEQLGLSRMPVREALQSLEQEGFLIRLPNRHMQVAHLEADRVS 80
Cdd:COG1802    4 PSPLRRESLAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPEEIR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429  81 HIFRVIAAMAAEMFSLIPSEVGDALLIRAQALAVAEDKSCELEC-----------HAMLISYVNNRYLEKLYQQFLD--G 147
Cdd:COG1802   84 ELYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDvaayleldrefHRALVEAAGNPRLAELLRRLRArlR 163

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 446646429 148 YVSYVILHLKKDNQESAQLFAELADVIRQGRRDEIGQVMQRYFLSLAEIMRQHMKDWES 206
Cdd:COG1802  164 RYRRLSLRSPGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERARERLLEALAAAAA 222
 
Name Accession Description Interval E-value
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
1-206 2.73e-25

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 98.07  E-value: 2.73e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429   1 MKKIQRTQTRDHITQMLRYEILSGNIKAGEELAQESIAEQLGLSRMPVREALQSLEQEGFLIRLPNRHMQVAHLEADRVS 80
Cdd:COG1802    4 PSPLRRESLAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPEEIR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429  81 HIFRVIAAMAAEMFSLIPSEVGDALLIRAQALAVAEDKSCELEC-----------HAMLISYVNNRYLEKLYQQFLD--G 147
Cdd:COG1802   84 ELYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDvaayleldrefHRALVEAAGNPRLAELLRRLRArlR 163

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 446646429 148 YVSYVILHLKKDNQESAQLFAELADVIRQGRRDEIGQVMQRYFLSLAEIMRQHMKDWES 206
Cdd:COG1802  164 RYRRLSLRSPGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERARERLLEALAAAAA 222
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 9-67 7.45e-12

Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the N-terminal HTH region of GntR-like bacterial transcription factors. At the C-terminus there is usually an effector-binding/oligomerization domain. The GntR-like proteins include the following sub-families: MocR, YtrR, FadR, AraR, HutC and PlmA, DevA, DasR. Many of these proteins have been shown experimentally to be autoregulatory, enabling the prediction of operator sites and the discovery of cis/trans relationships. The DasR regulator has been shown to be a global regulator of primary metabolism and development in Streptomyces coelicolor.


Pssm-ID: 306822 [Multi-domain]  Cd Length: 64  Bit Score: 58.39  E-value: 7.45e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429    9 TRDHITQMLRYEILSGNIKAGEEL-AQESIAEQLGLSRMPVREALQSLEQEGFLIRLPNR 67
Cdd:pfam00392   1 LYEQVYARLREDILSGRLRPGDKLpSERELAAEFGVSRTTVREALRRLEAEGLVERRQGR 60
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 11-67 1.28e-11

Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is presumed to result in a conformational change that regulates the DNA-binding affinity of the repressor. The GntR-like proteins bind as dimers, where each monomer recognizes a half-site of 2-fold symmetric DNA sequences.


Pssm-ID: 153418 [Multi-domain]  Cd Length: 66  Bit Score: 57.84  E-value: 1.28e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446646429  11 DHITQMLRYEILSGNIKAGEEL-AQESIAEQLGLSRMPVREALQSLEQEGFLIRLPNR 67
Cdd:cd07377    4 EQIADQLREAILSGELKPGDRLpSERELAEELGVSRTTVREALRELEAEGLVERRPGR 61
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
13-65 9.42e-11

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 55.27  E-value: 9.42e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 446646429    13 ITQMLRYEILSGNIKAGEELAQES-IAEQLGLSRMPVREALQSLEQEGFLIRLP 65
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSEReLAAQLGVSRTTVREALSRLEAEGLVQRRP 54
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
3-63 6.54e-06

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 45.40  E-value: 6.54e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446646429   3 KIQRTQTRDHITQMLRYEILSGNIKAGEELAQE-SIAEQLGLSRMPVREALQSLEQEGFLIR 63
Cdd:PRK09464   5 KIRQPKLSDVIEQQLEFLILEGTLRPGEKLPPErELAKQFDVSRPSLREAIQRLEAKGLLLR 66
 
Name Accession Description Interval E-value
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
1-206 2.73e-25

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 98.07  E-value: 2.73e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429   1 MKKIQRTQTRDHITQMLRYEILSGNIKAGEELAQESIAEQLGLSRMPVREALQSLEQEGFLIRLPNRHMQVAHLEADRVS 80
Cdd:COG1802    4 PSPLRRESLAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPEEIR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429  81 HIFRVIAAMAAEMFSLIPSEVGDALLIRAQALAVAEDKSCELEC-----------HAMLISYVNNRYLEKLYQQFLD--G 147
Cdd:COG1802   84 ELYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDvaayleldrefHRALVEAAGNPRLAELLRRLRArlR 163

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 446646429 148 YVSYVILHLKKDNQESAQLFAELADVIRQGRRDEIGQVMQRYFLSLAEIMRQHMKDWES 206
Cdd:COG1802  164 RYRRLSLRSPGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERARERLLEALAAAAA 222
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 9-67 7.45e-12

Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the N-terminal HTH region of GntR-like bacterial transcription factors. At the C-terminus there is usually an effector-binding/oligomerization domain. The GntR-like proteins include the following sub-families: MocR, YtrR, FadR, AraR, HutC and PlmA, DevA, DasR. Many of these proteins have been shown experimentally to be autoregulatory, enabling the prediction of operator sites and the discovery of cis/trans relationships. The DasR regulator has been shown to be a global regulator of primary metabolism and development in Streptomyces coelicolor.


Pssm-ID: 306822 [Multi-domain]  Cd Length: 64  Bit Score: 58.39  E-value: 7.45e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429    9 TRDHITQMLRYEILSGNIKAGEEL-AQESIAEQLGLSRMPVREALQSLEQEGFLIRLPNR 67
Cdd:pfam00392   1 LYEQVYARLREDILSGRLRPGDKLpSERELAAEFGVSRTTVREALRRLEAEGLVERRQGR 60
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 11-67 1.28e-11

Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is presumed to result in a conformational change that regulates the DNA-binding affinity of the repressor. The GntR-like proteins bind as dimers, where each monomer recognizes a half-site of 2-fold symmetric DNA sequences.


Pssm-ID: 153418 [Multi-domain]  Cd Length: 66  Bit Score: 57.84  E-value: 1.28e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446646429  11 DHITQMLRYEILSGNIKAGEEL-AQESIAEQLGLSRMPVREALQSLEQEGFLIRLPNR 67
Cdd:cd07377    4 EQIADQLREAILSGELKPGDRLpSERELAEELGVSRTTVREALRELEAEGLVERRPGR 61
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
2-203 4.71e-11

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 59.95  E-value: 4.71e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429   2 KKIQRTQTRDHITQMLRYEILSGNIKAGEELAQES-IAEQLGLSRMPVREALQSLEQEGFLIRLPNRHMQVAHLEADRVS 80
Cdd:COG2186    1 KPIRRRSLAEQVAEQLRELILSGELKPGDRLPSEReLAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429  81 HIFRV----------------------IAAMAAEMFSlipsevgDALLIRAQALAVAEDKSCE---------LECHAMLI 129
Cdd:COG2186   81 DPLALllalddaslrdllearlalepeAARLAAERAT-------DEDLARLEAALAEMEAAADdgeafaeadLAFHRAIA 153

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446646429 130 SYVNNRYLEKLYQQFLDGYVSYVILHL--KKDNQESAQLFAELADVIRQGRRDEIGQVMQRYFLSLAEIMRQHMKD 203
Cdd:COG2186  154 EASGNPLLALLLESLRELLRRSVRLTLrsPEARERSLAEHRAILDAIRAGDPEAARAAMRAHLEAVRERLREALAE 229
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
13-65 9.42e-11

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 55.27  E-value: 9.42e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 446646429    13 ITQMLRYEILSGNIKAGEELAQES-IAEQLGLSRMPVREALQSLEQEGFLIRLP 65
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSEReLAAQLGVSRTTVREALSRLEAEGLVQRRP 54
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
13-91 9.22e-08

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 50.63  E-value: 9.22e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429  13 ITQMLRYEILSGNIKAGEELAQES-IAEQLGLSRMPVREALQSLEQEGFLIRLPNRHMQVAHLEADR-VSHIFRVIAAMA 90
Cdd:COG2188   10 IADALRERIESGELPPGDRLPSEReLAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEPKIEYpLSRLTSFTEELR 89


                 .
gi 446646429  91 A 91
Cdd:COG2188   90 A 90
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
3-63 6.54e-06

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 45.40  E-value: 6.54e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446646429   3 KIQRTQTRDHITQMLRYEILSGNIKAGEELAQE-SIAEQLGLSRMPVREALQSLEQEGFLIR 63
Cdd:PRK09464   5 KIRQPKLSDVIEQQLEFLILEGTLRPGEKLPPErELAKQFDVSRPSLREAIQRLEAKGLLLR 66
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 10-101 3.36e-05

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 43.47  E-value: 3.36e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429  10 RDHITQMLRyeilSGNIKAGEELAQE-SIAEQLGLSRMPVREALQSLEQEGFLirlpnrhmQVAHLEADRVS-----HIF 83
Cdd:PRK03837  19 EERLEQMIR----SGEFGPGDQLPSErELMAFFGVGRPAVREALQALKRKGLV--------QISHGERARVSrpsadTII 86

                         90
                 ....*....|....*...
gi 446646429  84 RVIAAMAAEMFSLIPSEV 101
Cdd:PRK03837  87 GQLSGMAKDFLSQSPDGL 104
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 13-67 3.43e-05

DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain [Transcription, Amino acid transport and metabolism]; DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain is part of the Pathway/BioSystem: Lysine biosynthesis


Pssm-ID: 440781 [Multi-domain]  Cd Length: 471  Bit Score: 43.66  E-value: 3.43e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 446646429  13 ITQMLRYEILSGNIKAGEEL-AQESIAEQLGLSRMPVREALQSLEQEGFLIRLPNR 67
Cdd:COG1167   17 LADALREAILSGRLPPGDRLpSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGS 72
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 11-62 6.82e-05

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 42.45  E-value: 6.82e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 446646429  11 DHITQMLRYEILSGNIKAGEEL-AQESIAEQLGLSRMPVREALQSLEQEGFLI 62
Cdd:PRK10421   5 DEVADRVRALIEEKNLEAGMKLpAERQLAMQLGVSRNSLREALAKLVSEGVLL 57
PRK11534 PRK11534
DNA-binding transcriptional regulator CsiR; Provisional
 17-201 1.67e-04

DNA-binding transcriptional regulator CsiR; Provisional


Pssm-ID: 183181 [Multi-domain]  Cd Length: 224  Bit Score: 41.03  E-value: 1.67e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429  17 LRYEILSGNIKAGEELAQESIAEQLGLSRMPVREALQSLEQEGFLIRLPNRHMQVAHLEADRVSHIFRVIAAMAAEMFSL 96
Cdd:PRK11534  16 LKNDIIRGNFQPDEKLRMSLLTSRYALGVGPLREALSQLVAERLVTVVNQKGYRVASMSEQELLDIFDARANMEAMLVSL 95

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429  97 IPSEVGDA----LLIRAQALA-VAEDKSCE----------LECHAMLISYVNNRYLEKLYQQFLDGYVSYVILHLKKdnq 161
Cdd:PRK11534  96 AIARGGDEweadVLAKAHLLSkLEACDASEkmldewdlrhQAFHTAIVAGCGSHYLLQMRERLFDLAARYRFIWLRR--- 172

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 446646429 162 esAQLFAELADVIRQGRRDEIGQVMQRYFLSLAEIMRQHM 201
Cdd:PRK11534 173 --TVLSVEMLEDKHDQHQTLTAAILARDTARASELMRQHL 210
PRK11414 PRK11414
GntR family transcriptional regulator;
3-85 4.74e-03

GntR family transcriptional regulator;


Pssm-ID: 183126 [Multi-domain]  Cd Length: 221  Bit Score: 36.77  E-value: 4.74e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446646429   3 KIQRTQTRDHITQMLRYEILSGNIKAGEELAQESIAEQLGLSRMPVREALQSLEQEGFLIRLPNRHMQVAHLEADRVSHI 82
Cdd:PRK11414   6 KTQHISLTLQVENDLKHQLSIGALKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQAFTVPEVSKRQLDEI 85


                 ...
gi 446646429  83 FRV 85
Cdd:PRK11414  86 NRI 88
HTH_CRP cd00092
helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic ...
 31-68 7.50e-03

helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.


Pssm-ID: 238044 [Multi-domain]  Cd Length: 67  Bit Score: 33.79  E-value: 7.50e-03
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 446646429  31 ELAQESIAEQLGLSRMPVREALQSLEQEGFLIRLPNRH 68
Cdd:cd00092   25 PLTRQEIADYLGLTRETVSRTLKELEEEGLISRRGRGK 62
 
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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