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Conserved domains on  [gi|2105148892|ref|WP_225087187|]
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MULTISPECIES: GntR family transcriptional regulator [Pectobacterium]

Protein Classification

GntR family transcriptional regulator( domain architecture ID 11450764)

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

Gene Ontology:  GO:0003677|GO:0003700
PubMed:  2060763|26172911|33509775|15808743

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
19-245 1.78e-66

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


:

Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 205.87  E-value: 1.78e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  19 ADNTPLYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQIN-NIFEYSLKE 97
Cdd:COG2188     1 SSPVPLYLQIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAePKIEYPLSR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  98 ARGFSQQVVLRGKKPNTLWVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDLIADADDI---GV 174
Cdd:COG2188    81 LTSFTEELRARGREPSTRVLSAERVPADEEVAEALGLPPGAPVLRIERLRLADGEPVALETSYLPAALFPGLLEEdleTG 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2105148892 175 SLYDYFRSQ-NINPQRTRSRVSARMPDAEFQSHIQLDNKVPVLVIKQVALDQQNRPIEYSISYCRSDLYVFV 245
Cdd:COG2188   161 SLYELLEERyGLRITRAEQRIEAVLADAEEAELLGVPPGAPVLVIERVTYDADGRPVEYSRSYYRGDRYRFV 232
 
Name Accession Description Interval E-value
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
19-245 1.78e-66

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 205.87  E-value: 1.78e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  19 ADNTPLYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQIN-NIFEYSLKE 97
Cdd:COG2188     1 SSPVPLYLQIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAePKIEYPLSR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  98 ARGFSQQVVLRGKKPNTLWVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDLIADADDI---GV 174
Cdd:COG2188    81 LTSFTEELRARGREPSTRVLSAERVPADEEVAEALGLPPGAPVLRIERLRLADGEPVALETSYLPAALFPGLLEEdleTG 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2105148892 175 SLYDYFRSQ-NINPQRTRSRVSARMPDAEFQSHIQLDNKVPVLVIKQVALDQQNRPIEYSISYCRSDLYVFV 245
Cdd:COG2188   161 SLYELLEERyGLRITRAEQRIEAVLADAEEAELLGVPPGAPVLVIERVTYDADGRPVEYSRSYYRGDRYRFV 232
PRK11402 PRK11402
transcriptional regulator PhoB;
22-244 5.49e-38

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 133.04  E-value: 5.49e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  22 TPLYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQINN-IFEYSLKEARG 100
Cdd:PRK11402    8 QLLYATVRQRLLDDIAQGVYQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQSqKVENALLTVSG 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892 101 FSQQVVLRGKKPNTLwVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDLIADADDI---GVSLY 177
Cdd:PRK11402   88 FTDFGVSQGKATKEK-VIEQERVSAAPFCEKLNIPGNSEVFHLCRVMYLDKEPLFIDSSWIPLSRYPDFDEIyveGSSTY 166

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2105148892 178 DYFRSQ-NINP---QRTRSRVSARMPDAEfqsHIQLDNKVPVLVIKQVALDQQNRPIEYSISYCRSDLYVF 244
Cdd:PRK11402  167 QLFQERfDTRVvsdKKTIDIFAATRPEAK---WLKCELGEPLFRISKIAFDQNDKPVHVSELFCRANRVTL 234
UTRA pfam07702
UTRA domain; The UbiC transcription regulator-associated (UTRA) domain is a conserved ...
 108-242 7.01e-37

UTRA domain; The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain that has a similar fold to pfam04345. It is believed to modulate activity of bacterial transcription factors in response to binding small molecules sugar phosphates and urocanate, Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 429607 [Multi-domain]  Cd Length: 141  Bit Score: 126.94  E-value: 7.01e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892 108 RGKKPNTLWVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDLIADADDI---GVSLYDYFRSQ- 183
Cdd:pfam07702   2 QGREPKTEVLSLEEVPASAEIAEALGLPPGEPVYRIERLRYADGEPVALEEDYLPAELVPDLLEEdleEGSLYDYLEERy 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2105148892 184 NINPQRTRSRVSARMPDAEFQSHIQLDNKVPVLVIKQVALDQQNRPIEYSISYCRSDLY 242
Cdd:pfam07702  82 GLPITRAEQTIEAVLADAEEAELLGISPGAPVLLIERVTYDQDGRPVEYSRSYYRGDRY 140
UTRA smart00866
The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; ...
 108-242 5.43e-32

The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; It has a similar fold to HutC/FarR-like bacterial transcription factors of the GntR family. It is believed to modulate activity of bacterial transcription factors in response to binding small molecules.


Pssm-ID: 214869 [Multi-domain]  Cd Length: 143  Bit Score: 114.31  E-value: 5.43e-32
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  108 RGKKPNTLWVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDLIAD--ADDIGVSLYDYFRSQN- 184
Cdd:smart00866   2 QGRKPTTKVLSFERVPADEELAEALGLPPGDPVYRIERLRLADGEPVALETTYLPAALFPGllEEDLSGSLYEYLEERLg 81

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2105148892  185 ---INPQRTRSRVSARMPDAEFQSHIQLDNKVPVLVIKQVALDQQNRPIEYSISYCRSDLY 242
Cdd:smart00866  82 lkiVRSTRAEQTITAVLADEEEAELLGLPPGAPLLVVERVTYDDDGRPVEYSRSYYRGDRF 142
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 24-247 1.11e-30

phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond. [Transport and binding proteins, Anions, Regulatory functions, DNA interactions]


Pssm-ID: 131378 [Multi-domain]  Cd Length: 238  Bit Score: 113.73  E-value: 1.11e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  24 LYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQI-NNIFEYSLKEARGFS 102
Cdd:TIGR02325   9 LWRQIADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVaARRIDYPLSARTRFS 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892 103 QQVVLRGKKPNTLWVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDL---IADADDIGVSLYDY 179
Cdd:TIGR02325  89 QNLADQGREPTGELLLSDLEPASAELADALGLTVGAPLVRLETLRKADGRPLCRATTWFPAARfpgIGQAYAASGSITDA 168

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2105148892 180 FRSQNINPQRTRS-RVSARMPDAEFQSHIQLDNKVPVLVIKQVALDQQNRPIEYSISYCRSDLYVFVCE 247
Cdd:TIGR02325 169 LREQGVADYRRSStRISARHADAKDCARLELPPGRPLLVVQALNHDGEGRPVQYSVSRFRADRVEFTME 237
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 23-88 2.60e-18

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: 76.33  E-value: 2.60e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2105148892  23 PLYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQIN 88
Cdd:cd07377     1 PLYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
 
Name Accession Description Interval E-value
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
19-245 1.78e-66

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 205.87  E-value: 1.78e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  19 ADNTPLYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQIN-NIFEYSLKE 97
Cdd:COG2188     1 SSPVPLYLQIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAePKIEYPLSR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  98 ARGFSQQVVLRGKKPNTLWVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDLIADADDI---GV 174
Cdd:COG2188    81 LTSFTEELRARGREPSTRVLSAERVPADEEVAEALGLPPGAPVLRIERLRLADGEPVALETSYLPAALFPGLLEEdleTG 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2105148892 175 SLYDYFRSQ-NINPQRTRSRVSARMPDAEFQSHIQLDNKVPVLVIKQVALDQQNRPIEYSISYCRSDLYVFV 245
Cdd:COG2188   161 SLYELLEERyGLRITRAEQRIEAVLADAEEAELLGVPPGAPVLVIERVTYDADGRPVEYSRSYYRGDRYRFV 232
PRK11402 PRK11402
transcriptional regulator PhoB;
22-244 5.49e-38

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 133.04  E-value: 5.49e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  22 TPLYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQINN-IFEYSLKEARG 100
Cdd:PRK11402    8 QLLYATVRQRLLDDIAQGVYQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQSqKVENALLTVSG 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892 101 FSQQVVLRGKKPNTLwVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDLIADADDI---GVSLY 177
Cdd:PRK11402   88 FTDFGVSQGKATKEK-VIEQERVSAAPFCEKLNIPGNSEVFHLCRVMYLDKEPLFIDSSWIPLSRYPDFDEIyveGSSTY 166

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2105148892 178 DYFRSQ-NINP---QRTRSRVSARMPDAEfqsHIQLDNKVPVLVIKQVALDQQNRPIEYSISYCRSDLYVF 244
Cdd:PRK11402  167 QLFQERfDTRVvsdKKTIDIFAATRPEAK---WLKCELGEPLFRISKIAFDQNDKPVHVSELFCRANRVTL 234
UTRA pfam07702
UTRA domain; The UbiC transcription regulator-associated (UTRA) domain is a conserved ...
 108-242 7.01e-37

UTRA domain; The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain that has a similar fold to pfam04345. It is believed to modulate activity of bacterial transcription factors in response to binding small molecules sugar phosphates and urocanate, Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 429607 [Multi-domain]  Cd Length: 141  Bit Score: 126.94  E-value: 7.01e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892 108 RGKKPNTLWVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDLIADADDI---GVSLYDYFRSQ- 183
Cdd:pfam07702   2 QGREPKTEVLSLEEVPASAEIAEALGLPPGEPVYRIERLRYADGEPVALEEDYLPAELVPDLLEEdleEGSLYDYLEERy 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2105148892 184 NINPQRTRSRVSARMPDAEFQSHIQLDNKVPVLVIKQVALDQQNRPIEYSISYCRSDLY 242
Cdd:pfam07702  82 GLPITRAEQTIEAVLADAEEAELLGISPGAPVLLIERVTYDQDGRPVEYSRSYYRGDRY 140
UTRA smart00866
The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; ...
 108-242 5.43e-32

The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; It has a similar fold to HutC/FarR-like bacterial transcription factors of the GntR family. It is believed to modulate activity of bacterial transcription factors in response to binding small molecules.


Pssm-ID: 214869 [Multi-domain]  Cd Length: 143  Bit Score: 114.31  E-value: 5.43e-32
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  108 RGKKPNTLWVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDLIAD--ADDIGVSLYDYFRSQN- 184
Cdd:smart00866   2 QGRKPTTKVLSFERVPADEELAEALGLPPGDPVYRIERLRLADGEPVALETTYLPAALFPGllEEDLSGSLYEYLEERLg 81

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2105148892  185 ---INPQRTRSRVSARMPDAEFQSHIQLDNKVPVLVIKQVALDQQNRPIEYSISYCRSDLY 242
Cdd:smart00866  82 lkiVRSTRAEQTITAVLADEEEAELLGLPPGAPLLVVERVTYDDDGRPVEYSRSYYRGDRF 142
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 24-247 1.11e-30

phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond. [Transport and binding proteins, Anions, Regulatory functions, DNA interactions]


Pssm-ID: 131378 [Multi-domain]  Cd Length: 238  Bit Score: 113.73  E-value: 1.11e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  24 LYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQI-NNIFEYSLKEARGFS 102
Cdd:TIGR02325   9 LWRQIADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVaARRIDYPLSARTRFS 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892 103 QQVVLRGKKPNTLWVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDL---IADADDIGVSLYDY 179
Cdd:TIGR02325  89 QNLADQGREPTGELLLSDLEPASAELADALGLTVGAPLVRLETLRKADGRPLCRATTWFPAARfpgIGQAYAASGSITDA 168

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2105148892 180 FRSQNINPQRTRS-RVSARMPDAEFQSHIQLDNKVPVLVIKQVALDQQNRPIEYSISYCRSDLYVFVCE 247
Cdd:TIGR02325 169 LREQGVADYRRSStRISARHADAKDCARLELPPGRPLLVVQALNHDGEGRPVQYSVSRFRADRVEFTME 237
PRK09764 PRK09764
GntR family transcriptional regulator;
21-244 4.09e-23

GntR family transcriptional regulator;


Pssm-ID: 182065 [Multi-domain]  Cd Length: 240  Bit Score: 93.74  E-value: 4.09e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  21 NTPLYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQIN-NIFEYSLKEAR 99
Cdd:PRK09764    3 HKPLYRQIADRIREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESIQGSGTYVKeERVNYDIFQLT 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892 100 GFSQQVVLRGKKPNTLWVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDLIADA--DDIGVSLY 177
Cdd:PRK09764   83 SFDEKLSDRHVDTHSEVLIFEVIPADDFLQQQLQITAQDRVWHVKRVRYRKQKPMALEETWMPLALFPDLtwQVMENSKY 162

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2105148892 178 DYFRS-QNINPQRTRSRVSARMPDAEFQSHIQLDNKVPVLVIKQVALDQQNRPIEYSISYCRSDLYVF 244
Cdd:PRK09764  163 HFIEEvKKMVIDRSEQEIIPLMPTEEMSRLLNISQTKPILEKVSRGYLVDGRVFEYSRNAFNTDDYKF 230
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 23-88 2.60e-18

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: 76.33  E-value: 2.60e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2105148892  23 PLYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQIN 88
Cdd:cd07377     1 PLYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
PRK10079 PRK10079
phosphonate metabolism transcriptional regulator PhnF; Provisional
 44-247 1.61e-15

phosphonate metabolism transcriptional regulator PhnF; Provisional


Pssm-ID: 182227 [Multi-domain]  Cd Length: 241  Bit Score: 73.27  E-value: 1.61e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  44 GNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQI-NNIFEYSLKEARGFSQQVVLRGKKPNTLWVNKQVV 122
Cdd:PRK10079   32 GDYLPAEQQLAARYEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVlMRPYDYPLNAQARFSQNLLDQGSHPTSEKLLSVLR 111

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892 123 KSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPvDL----IADADDIGvSLYDYFRSQ-NINPQRTRSRVSAR 197
Cdd:PRK10079  112 PASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFA-DLtwwpTLQRFDSG-SLHDFLREQlGIALRRSQTRISAR 189

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2105148892 198 MPDAEFQSHIQLDNKVPVLVIKQV-ALDQQNRPIEYSISYCRSDLYVFVCE 247
Cdd:PRK10079  190 RAQAKESQLLEIPNMSPLLCVRTLnHRDGESSPAEYSVSLTRADMIEFTME 240
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
29-87 4.76e-14

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 64.90  E-value: 4.76e-14
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 2105148892   29 AETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQI 87
Cdd:smart00345   2 AERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 24-85 5.22e-14

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: 64.94  E-value: 5.22e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2105148892  24 LYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGT 85
Cdd:pfam00392   1 LYEQVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGT 62
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 12-85 1.48e-13

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: 69.47  E-value: 1.48e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2105148892  12 LTQRFATADNTPLYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGT 85
Cdd:COG1167     1 MLIRLDRDSSGPLYLQLADALREAILSGRLPPGDRLPSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSGT 74
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
20-85 6.68e-13

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


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 63.27  E-value: 6.68e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2105148892  20 DNTPLYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGT 85
Cdd:COG1725     7 SGVPIYEQIADQIKEAIASGELKPGDRLPSVRELAAELGVNPNTVAKAYRELEDEGLIETRRGKGT 72
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
21-89 1.30e-12

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 64.95  E-value: 1.30e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2105148892  21 NTPLYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQINN 89
Cdd:COG2186     5 RRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVRE 73
PRK14999 PRK14999
histidine utilization repressor; Provisional
 23-168 6.40e-08

histidine utilization repressor; Provisional


Pssm-ID: 184961 [Multi-domain]  Cd Length: 241  Bit Score: 51.86  E-value: 6.40e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  23 PLYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQINN-IFEYSLKEARGF 101
Cdd:PRK14999   12 PFYETVKQDICKKIAGGVWQPHDRIPSEAELVAQYGFSRMTINRALRELTDEGWLVRLQGVGTFVAEpKGQSALFEVRSI 91

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2105148892 102 SQQVVLRGKKPNTLWVNKQVVKSSKEVAEQLAIVPETPVFLLKRIRYVDEDAVSIEESYVPVDLIAD 168
Cdd:PRK14999   92 AEEIAARRHQHRCEVLTLERVRANAIQASALNVNESDVIFHSIMVHYENDLPVQIEDRCVNADIAVD 158
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
29-99 7.01e-08

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 51.46  E-value: 7.01e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2105148892  29 AETVKNAVRSGMLEhGNILPGER----DLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQINNIfeySLKEAR 99
Cdd:COG1802    13 AEQVYEALREAILS-GELPPGERlseaELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPL---SPEEIR 83
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
44-94 1.65e-07

fatty acid metabolism transcriptional regulator FadR;


Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 50.64  E-value: 1.65e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2105148892  44 GNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQINNIFEYS 94
Cdd:PRK04984   28 GSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNFWETS 78
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 29-87 2.30e-07

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 50.15  E-value: 2.30e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2105148892  29 AETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQI 87
Cdd:PRK10421    8 ADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFI 66
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 27-77 2.56e-06

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 46.94  E-value: 2.56e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2105148892  27 KFAETV----KNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVV 77
Cdd:PRK03837   13 KLSEEVeerlEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLV 67
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
39-89 7.00e-06

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 45.78  E-value: 7.00e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2105148892  39 GMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQINN 89
Cdd:PRK09464   26 GTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQS 76
PRK11523 PRK11523
transcriptional regulator ExuR;
24-87 4.02e-05

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 43.68  E-value: 4.02e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2105148892  24 LYLKFAETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQI 87
Cdd:PRK11523    9 LYQQLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKGSGIHV 72
BirA COG1654
Biotin operon repressor [Transcription];
40-83 4.69e-05

Biotin operon repressor [Transcription];


Pssm-ID: 441260 [Multi-domain]  Cd Length: 324  Bit Score: 43.82  E-value: 4.69e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 2105148892  40 MLEHGNILPGErDLSQLTGVSRITVRKAMQTLEEEGV----VTRvRGY 83
Cdd:COG1654    12 LLADGEFHSGE-ELAEELGVSRAAVWKHIKALRELGYeiesVPG-KGY 57
GlpR COG1349
DNA-binding transcriptional regulator of sugar metabolism, DeoR/GlpR family [Transcription, ...
 52-82 5.48e-05

DNA-binding transcriptional regulator of sugar metabolism, DeoR/GlpR family [Transcription, Carbohydrate transport and metabolism];


Pssm-ID: 440960 [Multi-domain]  Cd Length: 254  Bit Score: 43.20  E-value: 5.48e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2105148892  52 DLSQLTGVSRITVRKAMQTLEEEGVVTRVRG 82
Cdd:COG1349    24 ELAERLGVSEETIRRDLAELEEQGLLRRVHG 54
HTH_DEOR smart00420
helix_turn_helix, Deoxyribose operon repressor;
52-82 2.58e-04

helix_turn_helix, Deoxyribose operon repressor;


Pssm-ID: 197714 [Multi-domain]  Cd Length: 53  Bit Score: 37.97  E-value: 2.58e-04
                           10        20        30
                   ....*....|....*....|....*....|.
gi 2105148892   52 DLSQLTGVSRITVRKAMQTLEEEGVVTRVRG 82
Cdd:smart00420  19 ELAELLGVSEMTIRRDLNKLEEQGLLTRVHG 49
PRK09990 PRK09990
DNA-binding transcriptional regulator GlcC; Provisional
 29-169 2.81e-04

DNA-binding transcriptional regulator GlcC; Provisional


Pssm-ID: 182186 [Multi-domain]  Cd Length: 251  Bit Score: 41.29  E-value: 2.81e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  29 AETVKNAVRSGMLEHGNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTqinniFEYSLKEARGFSQQVVLR 108
Cdd:PRK09990   13 AERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGS-----FVARLNRVQDASPLMHLF 87

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2105148892 109 GKKPNTLWVNKQVVKSSKEVAEQLAIVPETPV-FLLKRIRYvdEDAVSIEESYVPVDLIADA 169
Cdd:PRK09990   88 SSQPRTLYDLLEVRALLEGESARLAALRGTQAdFVLITRRY--EEMLAAHENNKEIDPIEHA 147
PRK10225 PRK10225
Uxu operon transcriptional regulator;
44-84 7.95e-04

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 39.62  E-value: 7.95e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 2105148892  44 GNILPGERDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYG 84
Cdd:PRK10225   30 GERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAG 70
HTH_ICLR smart00346
helix_turn_helix isocitrate lyase regulation;
39-84 1.17e-03

helix_turn_helix isocitrate lyase regulation;


Pssm-ID: 214629 [Multi-domain]  Cd Length: 91  Bit Score: 37.18  E-value: 1.17e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 2105148892   39 GMLEHGNILPGE---RDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYG 84
Cdd:smart00346   9 AVLRALAEEPGGltlAELAERLGLSKSTAHRLLNTLQELGYVEQDGQNG 57
HTH_CRP smart00419
helix_turn_helix, cAMP Regulatory protein;
51-83 1.65e-03

helix_turn_helix, cAMP Regulatory protein;


Pssm-ID: 128696 [Multi-domain]  Cd Length: 48  Bit Score: 35.49  E-value: 1.65e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 2105148892   51 RDLSQLTGVSRITVRKAMQTLEEEGVVTRVRGY 83
Cdd:smart00419  12 QEIAELLGLTRETVSRTLKRLEKEGLISREGGR 44
COG3355 COG3355
Predicted transcriptional regulator [Transcription];
52-137 2.36e-03

Predicted transcriptional regulator [Transcription];


Pssm-ID: 442583 [Multi-domain]  Cd Length: 131  Bit Score: 37.25  E-value: 2.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2105148892  52 DLSQLTGVSRITVRKAMQTLEEEGVVTRVRGYGTQINNIFEYSLKEARGFSQQVVLRGKKpntlWVNK--QVVKS-SKEV 128
Cdd:COG3355    47 ELAEALDRSRSTVYRSLQKLLEAGLVEREKRNLEGGGYPYVYYAIDPEELKEKLVDDLDE----WYEKvgELIEEfEEEK 122


                  ....*....
gi 2105148892 129 AEQLAIVPE 137
Cdd:COG3355   123 ADPLAITWE 131
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 41-83 3.79e-03

HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.


Pssm-ID: 429896 [Multi-domain]  Cd Length: 52  Bit Score: 34.72  E-value: 3.79e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2105148892  41 LEHGNILPGErDLSQLTGVSRITVRKAMQTLEEEGVV---TRVRGY 83
Cdd:pfam08279   8 LEARGPISGQ-ELAEKLGVSRRTIRRDIKILEELGVPieaEPGRGY 52
PRK09834 PRK09834
DNA-binding transcriptional regulator;
52-80 5.29e-03

DNA-binding transcriptional regulator;


Pssm-ID: 182100 [Multi-domain]  Cd Length: 263  Bit Score: 37.28  E-value: 5.29e-03
                          10        20
                  ....*....|....*....|....*....
gi 2105148892  52 DLSQLTGVSRITVRKAMQTLEEEGVVTRV 80
Cdd:PRK09834   31 LLAELTGLHRTTVRRLLETLQEEGYVRRS 59
HTH_DeoR pfam08220
DeoR-like helix-turn-helix domain;
52-82 6.44e-03

DeoR-like helix-turn-helix domain;


Pssm-ID: 285436 [Multi-domain]  Cd Length: 57  Bit Score: 34.16  E-value: 6.44e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2105148892  52 DLSQLTGVSRITVRKAMQTLEEEGVVTRVRG 82
Cdd:pfam08220  19 ELAELLGVSEMTIRRDLNELEEQGLLTRTHG 49
Lrp COG1522
DNA-binding transcriptional regulator, Lrp family [Transcription];
51-88 8.47e-03

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


Pssm-ID: 441131 [Multi-domain]  Cd Length: 138  Bit Score: 35.52  E-value: 8.47e-03
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 2105148892  51 RDLSQLTGVSRITVRKAMQTLEEEGVvtrVRGYGTQIN 88
Cdd:COG1522    23 AELAERVGLSESTVLRRVRRLEEAGV---IRGYGAVVD 57
 
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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