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Conserved domains on  [gi|635724463|gb|KDF06249|]
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hypothetical protein AF41_02996 [Citrobacter sp. MGH 55]

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];
20-245 4.79e-66

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


:

Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 204.71  E-value: 4.79e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  20 DNTPLYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQIN-NIFEYSLKEA 98
Cdd:COG2188    2 SPVPLYLQIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAePKIEYPLSRL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  99 RGFSQQVVLRGKKPDTLWVNKRVVKCPEEVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHDADEIGI---S 175
Cdd:COG2188   82 TSFTEELRARGREPSTRVLSAERVPADEEVAEALGLPPGAPVLRIERLRLADGEPVALETSYLPAALFPGLLEEDLetgS 161

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 635724463 176 LYDYFRSQ-HIHPQRTRSRVSAKMPDAEFQSHIQMDSKVPVLVIKQVALDQQQRPIEYSISYCRSDLYVFV 245
Cdd:COG2188  162 LYELLEERyGLRITRAEQRIEAVLADAEEAELLGVPPGAPVLVIERVTYDADGRPVEYSRSYYRGDRYRFV 232
 
Name Accession Description Interval E-value
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
20-245 4.79e-66

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 204.71  E-value: 4.79e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  20 DNTPLYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQIN-NIFEYSLKEA 98
Cdd:COG2188    2 SPVPLYLQIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAePKIEYPLSRL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  99 RGFSQQVVLRGKKPDTLWVNKRVVKCPEEVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHDADEIGI---S 175
Cdd:COG2188   82 TSFTEELRARGREPSTRVLSAERVPADEEVAEALGLPPGAPVLRIERLRLADGEPVALETSYLPAALFPGLLEEDLetgS 161

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 635724463 176 LYDYFRSQ-HIHPQRTRSRVSAKMPDAEFQSHIQMDSKVPVLVIKQVALDQQQRPIEYSISYCRSDLYVFV 245
Cdd:COG2188  162 LYELLEERyGLRITRAEQRIEAVLADAEEAELLGVPPGAPVLVIERVTYDADGRPVEYSRSYYRGDRYRFV 232
PRK11402 PRK11402
transcriptional regulator PhoB;
22-244 4.58e-39

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 135.73  E-value: 4.58e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  22 TPLYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQINN-IFEYSLKEARG 100
Cdd:PRK11402   8 QLLYATVRQRLLDDIAQGVYQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQSqKVENALLTVSG 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463 101 FSQQVVLRGKKPDT-LWVNKRVVKCPeeVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHDADEI---GISL 176
Cdd:PRK11402  88 FTDFGVSQGKATKEkVIEQERVSAAP--FCEKLNIPGNSEVFHLCRVMYLDKEPLFIDSSWIPLSRYPDFDEIyveGSST 165

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 635724463 177 YDYFRSQH----IHPQRTRSRVSAKMPDAEfqsHIQMDSKVPVLVIKQVALDQQQRPIEYSISYCRSDLYVF 244
Cdd:PRK11402 166 YQLFQERFdtrvVSDKKTIDIFAATRPEAK---WLKCELGEPLFRISKIAFDQNDKPVHVSELFCRANRVTL 234
UTRA pfam07702
UTRA domain; The UbiC transcription regulator-associated (UTRA) domain is a conserved ...
 108-242 3.02e-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: 127.71  E-value: 3.02e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  108 RGKKPDTLWVNKRVVKCPEEVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHDADEI---GISLYDYFRSQ- 183
Cdd:pfam07702   2 QGREPKTEVLSLEEVPASAEIAEALGLPPGEPVYRIERLRYADGEPVALEEDYLPAELVPDLLEEdleEGSLYDYLEERy 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 635724463  184 HIHPQRTRSRVSAKMPDAEFQSHIQMDSKVPVLVIKQVALDQQQRPIEYSISYCRSDLY 242
Cdd:pfam07702  82 GLPITRAEQTIEAVLADAEEAELLGISPGAPVLLIERVTYDQDGRPVEYSRSYYRGDRY 140
UTRA smart00866
The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; ...
 108-242 1.94e-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: 115.47  E-value: 1.94e-32
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463   108 RGKKPDTLWVNKRVVKCPEEVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHDADE--IGISLYDYFRSQH- 184
Cdd:smart00866   2 QGRKPTTKVLSFERVPADEELAEALGLPPGDPVYRIERLRLADGEPVALETTYLPAALFPGLLEedLSGSLYEYLEERLg 81

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 635724463   185 ---IHPQRTRSRVSAKMPDAEFQSHIQMDSKVPVLVIKQVALDQQQRPIEYSISYCRSDLY 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 2.25e-28

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: 107.56  E-value: 2.25e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463   24 LYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQI-NNIFEYSLKEARGFS 102
Cdd:TIGR02325   9 LWRQIADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVaARRIDYPLSARTRFS 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  103 QQVVLRGKKPDTLWVNKRVVKCPEEVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHDA----DEIGiSLYD 178
Cdd:TIGR02325  89 QNLADQGREPTGELLLSDLEPASAELADALGLTVGAPLVRLETLRKADGRPLCRATTWFPAARFPGIgqayAASG-SITD 167

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  179 YFRSQHIHPQRTRS-RVSAKMPDAEFQSHIQMDSKVPVLVIKQVALDQQQRPIEYSISYCRSDLYVFVCE 247
Cdd:TIGR02325 168 ALREQGVADYRRSStRISARHADAKDCARLELPPGRPLLVVQALNHDGEGRPVQYSVSRFRADRVEFTME 237
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 23-88 6.84e-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: 75.18  E-value: 6.84e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 635724463  23 PLYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQIN 88
Cdd:cd07377    1 PLYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
 
Name Accession Description Interval E-value
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
20-245 4.79e-66

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 204.71  E-value: 4.79e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  20 DNTPLYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQIN-NIFEYSLKEA 98
Cdd:COG2188    2 SPVPLYLQIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAePKIEYPLSRL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  99 RGFSQQVVLRGKKPDTLWVNKRVVKCPEEVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHDADEIGI---S 175
Cdd:COG2188   82 TSFTEELRARGREPSTRVLSAERVPADEEVAEALGLPPGAPVLRIERLRLADGEPVALETSYLPAALFPGLLEEDLetgS 161

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 635724463 176 LYDYFRSQ-HIHPQRTRSRVSAKMPDAEFQSHIQMDSKVPVLVIKQVALDQQQRPIEYSISYCRSDLYVFV 245
Cdd:COG2188  162 LYELLEERyGLRITRAEQRIEAVLADAEEAELLGVPPGAPVLVIERVTYDADGRPVEYSRSYYRGDRYRFV 232
PRK11402 PRK11402
transcriptional regulator PhoB;
22-244 4.58e-39

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 135.73  E-value: 4.58e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  22 TPLYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQINN-IFEYSLKEARG 100
Cdd:PRK11402   8 QLLYATVRQRLLDDIAQGVYQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQSqKVENALLTVSG 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463 101 FSQQVVLRGKKPDT-LWVNKRVVKCPeeVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHDADEI---GISL 176
Cdd:PRK11402  88 FTDFGVSQGKATKEkVIEQERVSAAP--FCEKLNIPGNSEVFHLCRVMYLDKEPLFIDSSWIPLSRYPDFDEIyveGSST 165

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 635724463 177 YDYFRSQH----IHPQRTRSRVSAKMPDAEfqsHIQMDSKVPVLVIKQVALDQQQRPIEYSISYCRSDLYVF 244
Cdd:PRK11402 166 YQLFQERFdtrvVSDKKTIDIFAATRPEAK---WLKCELGEPLFRISKIAFDQNDKPVHVSELFCRANRVTL 234
UTRA pfam07702
UTRA domain; The UbiC transcription regulator-associated (UTRA) domain is a conserved ...
 108-242 3.02e-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: 127.71  E-value: 3.02e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  108 RGKKPDTLWVNKRVVKCPEEVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHDADEI---GISLYDYFRSQ- 183
Cdd:pfam07702   2 QGREPKTEVLSLEEVPASAEIAEALGLPPGEPVYRIERLRYADGEPVALEEDYLPAELVPDLLEEdleEGSLYDYLEERy 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 635724463  184 HIHPQRTRSRVSAKMPDAEFQSHIQMDSKVPVLVIKQVALDQQQRPIEYSISYCRSDLY 242
Cdd:pfam07702  82 GLPITRAEQTIEAVLADAEEAELLGISPGAPVLLIERVTYDQDGRPVEYSRSYYRGDRY 140
UTRA smart00866
The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; ...
 108-242 1.94e-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: 115.47  E-value: 1.94e-32
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463   108 RGKKPDTLWVNKRVVKCPEEVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHDADE--IGISLYDYFRSQH- 184
Cdd:smart00866   2 QGRKPTTKVLSFERVPADEELAEALGLPPGDPVYRIERLRLADGEPVALETTYLPAALFPGLLEedLSGSLYEYLEERLg 81

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 635724463   185 ---IHPQRTRSRVSAKMPDAEFQSHIQMDSKVPVLVIKQVALDQQQRPIEYSISYCRSDLY 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 2.25e-28

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: 107.56  E-value: 2.25e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463   24 LYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQI-NNIFEYSLKEARGFS 102
Cdd:TIGR02325   9 LWRQIADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVaARRIDYPLSARTRFS 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  103 QQVVLRGKKPDTLWVNKRVVKCPEEVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHDA----DEIGiSLYD 178
Cdd:TIGR02325  89 QNLADQGREPTGELLLSDLEPASAELADALGLTVGAPLVRLETLRKADGRPLCRATTWFPAARFPGIgqayAASG-SITD 167

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  179 YFRSQHIHPQRTRS-RVSAKMPDAEFQSHIQMDSKVPVLVIKQVALDQQQRPIEYSISYCRSDLYVFVCE 247
Cdd:TIGR02325 168 ALREQGVADYRRSStRISARHADAKDCARLELPPGRPLLVVQALNHDGEGRPVQYSVSRFRADRVEFTME 237
PRK09764 PRK09764
GntR family transcriptional regulator;
21-244 1.81e-22

GntR family transcriptional regulator;


Pssm-ID: 182065 [Multi-domain]  Cd Length: 240  Bit Score: 92.20  E-value: 1.81e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  21 NTPLYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQIN-NIFEYSLKEAR 99
Cdd:PRK09764   3 HKPLYRQIADRIREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESIQGSGTYVKeERVNYDIFQLT 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463 100 GFSQQVVLRGKKPDTLWVNKRVVKCPEEVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHDA--DEIGISLY 177
Cdd:PRK09764  83 SFDEKLSDRHVDTHSEVLIFEVIPADDFLQQQLQITAQDRVWHVKRVRYRKQKPMALEETWMPLALFPDLtwQVMENSKY 162

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 635724463 178 DYFRS-QHIHPQRTRSRVSAKMPDAEFQSHIQMDSKVPVLVIKQVALDQQQRPIEYSISYCRSDLYVF 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 6.84e-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: 75.18  E-value: 6.84e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 635724463  23 PLYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQIN 88
Cdd:cd07377    1 PLYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
PRK10079 PRK10079
phosphonate metabolism transcriptional regulator PhnF; Provisional
 44-247 3.19e-15

phosphonate metabolism transcriptional regulator PhnF; Provisional


Pssm-ID: 182227 [Multi-domain]  Cd Length: 241  Bit Score: 72.50  E-value: 3.19e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  44 GNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQI-NNIFEYSLKEARGFSQQVVLRGKKPDTLWVNKRVV 122
Cdd:PRK10079  32 GDYLPAEQQLAARYEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVlMRPYDYPLNAQARFSQNLLDQGSHPTSEKLLSVLR 111

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463 123 KCPEEVAQQLAIAAGSDVFLLKRIRYVDEDAVSI------EESWVPAHLIHDADeigiSLYDYFRSQ-HIHPQRTRSRVS 195
Cdd:PRK10079 112 PASGHVADALGITEGENVIHLRTLRRVNGVALCLidhyfaDLTWWPTLQRFDSG----SLHDFLREQlGIALRRSQTRIS 187

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|...
gi 635724463 196 AKMPDAEFQSHIQMDSKVPVLVIKQV-ALDQQQRPIEYSISYCRSDLYVFVCE 247
Cdd:PRK10079 188 ARRAQAKESQLLEIPNMSPLLCVRTLnHRDGESSPAEYSVSLTRADMIEFTME 240
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
29-87 1.01e-13

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 63.75  E-value: 1.01e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 635724463    29 AETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQI 87
Cdd:smart00345   2 AERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 24-85 3.12e-13

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: 62.63  E-value: 3.12e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 635724463   24 LYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGT 85
Cdd:pfam00392   1 LYEQVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGT 62
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
17-89 7.26e-13

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 65.73  E-value: 7.26e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 635724463  17 SAVDNTPLYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQINN 89
Cdd:COG2186    1 KPIRRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVRE 73
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 15-85 2.08e-12

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: 66.01  E-value: 2.08e-12
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 635724463  15 RISAVDNTPLYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGT 85
Cdd:COG1167    4 RLDRDSSGPLYLQLADALREAILSGRLPPGDRLPSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSGT 74
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
15-85 2.29e-12

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


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 61.73  E-value: 2.29e-12
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 635724463  15 RISAVDNTPLYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGT 85
Cdd:COG1725    2 RIDFDSGVPIYEQIADQIKEAIASGELKPGDRLPSVRELAAELGVNPNTVAKAYRELEDEGLIETRRGKGT 72
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
28-94 2.07e-08

fatty acid metabolism transcriptional regulator FadR;


Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 53.34  E-value: 2.07e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  28 FAEtvKNAVRS---GVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQINNIFEYS 94
Cdd:PRK04984  11 FAE--EYIIESiwnNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNFWETS 78
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 27-81 3.13e-07

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 49.64  E-value: 3.13e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 635724463  27 KFAETV----KNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVT-----RAR 81
Cdd:PRK03837  13 KLSEEVeerlEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQishgeRAR 76
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
41-99 4.24e-07

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 49.15  E-value: 4.24e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 635724463  41 IAHGNILPGER----DLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQINNIfeySLKEAR 99
Cdd:COG1802   24 ILSGELPPGERlseaELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPL---SPEEIR 83
PRK14999 PRK14999
histidine utilization repressor; Provisional
 23-168 1.18e-06

histidine utilization repressor; Provisional


Pssm-ID: 184961 [Multi-domain]  Cd Length: 241  Bit Score: 48.01  E-value: 1.18e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  23 PLYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQINN-IFEYSLKEARGF 101
Cdd:PRK14999  12 PFYETVKQDICKKIAGGVWQPHDRIPSEAELVAQYGFSRMTINRALRELTDEGWLVRLQGVGTFVAEpKGQSALFEVRSI 91

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 635724463 102 SQQVVLRGKKPDTLWVNKRVVKCPEEVAQQLAIAAGSDVFLLKRIRYVDEDAVSIEESWVPAHLIHD 168
Cdd:PRK14999  92 AEEIAARRHQHRCEVLTLERVRANAIQASALNVNESDVIFHSIMVHYENDLPVQIEDRCVNADIAVD 158
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
39-89 1.74e-05

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 44.63  E-value: 1.74e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 635724463  39 GVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQINN 89
Cdd:PRK09464  26 GTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQS 76
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 44-87 1.86e-05

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 44.76  E-value: 1.86e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 635724463  44 GNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQI 87
Cdd:PRK10421  23 GMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFI 66
PRK11523 PRK11523
transcriptional regulator ExuR;
24-87 4.25e-05

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 43.68  E-value: 4.25e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 635724463  24 LYIKFAETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQI 87
Cdd:PRK11523   9 LYQQLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKGSGIHV 72
BirA COG1654
Biotin operon repressor [Transcription];
42-83 1.66e-04

Biotin operon repressor [Transcription];


Pssm-ID: 441260 [Multi-domain]  Cd Length: 324  Bit Score: 41.90  E-value: 1.66e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 635724463  42 AHGNILPGErDLSQLTGVSRITVRKAMQALEEEGVV---TRARGY 83
Cdd:COG1654   14 ADGEFHSGE-ELAEELGVSRAAVWKHIKALRELGYEiesVPGKGY 57
PRK09990 PRK09990
DNA-binding transcriptional regulator GlcC; Provisional
 29-148 1.78e-04

DNA-binding transcriptional regulator GlcC; Provisional


Pssm-ID: 182186 [Multi-domain]  Cd Length: 251  Bit Score: 41.68  E-value: 1.78e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635724463  29 AETVKNAVRSGVIAHGNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTqinniFEYSLKEARGFSQQVVLR 108
Cdd:PRK09990  13 AERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGS-----FVARLNRVQDASPLMHLF 87

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 635724463 109 GKKPDTLWVNKRVVKCPEEVAQQLAIAAGSDV-FLLKRIRY 148
Cdd:PRK09990  88 SSQPRTLYDLLEVRALLEGESARLAALRGTQAdFVLITRRY 128
GlpR COG1349
DNA-binding transcriptional regulator of sugar metabolism, DeoR/GlpR family [Transcription, ...
 52-82 4.69e-04

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: 40.50  E-value: 4.69e-04
                         10        20        30
                 ....*....|....*....|....*....|.
gi 635724463  52 DLSQLTGVSRITVRKAMQALEEEGVVTRARG 82
Cdd:COG1349   24 ELAERLGVSEETIRRDLAELEEQGLLRRVHG 54
PRK10225 PRK10225
Uxu operon transcriptional regulator;
44-84 7.46e-04

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 40.00  E-value: 7.46e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 635724463  44 GNILPGERDLSQLTGVSRITVRKAMQALEEEGVVTRARGYG 84
Cdd:PRK10225  30 GERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAG 70
HTH_CRP smart00419
helix_turn_helix, cAMP Regulatory protein;
51-83 9.94e-04

helix_turn_helix, cAMP Regulatory protein;


Pssm-ID: 128696 [Multi-domain]  Cd Length: 48  Bit Score: 36.26  E-value: 9.94e-04
                           10        20        30
                   ....*....|....*....|....*....|...
gi 635724463    51 RDLSQLTGVSRITVRKAMQALEEEGVVTRARGY 83
Cdd:smart00419  12 QEIAELLGLTRETVSRTLKRLEKEGLISREGGR 44
HTH_DEOR smart00420
helix_turn_helix, Deoxyribose operon repressor;
52-82 1.19e-03

helix_turn_helix, Deoxyribose operon repressor;


Pssm-ID: 197714 [Multi-domain]  Cd Length: 53  Bit Score: 36.05  E-value: 1.19e-03
                           10        20        30
                   ....*....|....*....|....*....|.
gi 635724463    52 DLSQLTGVSRITVRKAMQALEEEGVVTRARG 82
Cdd:smart00420  19 ELAELLGVSEMTIRRDLNKLEEQGLLTRVHG 49
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 52-83 2.41e-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: 35.10  E-value: 2.41e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 635724463   52 DLSQLTGVSRITVRKAMQALEEEGVV---TRARGY 83
Cdd:pfam08279  18 ELAEKLGVSRRTIRRDIKILEELGVPieaEPGRGY 52
Lrp COG1522
DNA-binding transcriptional regulator, Lrp family [Transcription];
51-88 3.28e-03

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


Pssm-ID: 441131 [Multi-domain]  Cd Length: 138  Bit Score: 36.68  E-value: 3.28e-03
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 635724463  51 RDLSQLTGVSRITVRKAMQALEEEGVVtraRGYGTQIN 88
Cdd:COG1522   23 AELAERVGLSESTVLRRVRRLEEAGVI---RGYGAVVD 57
COG3355 COG3355
Predicted transcriptional regulator [Transcription];
52-94 6.17e-03

Predicted transcriptional regulator [Transcription];


Pssm-ID: 442583 [Multi-domain]  Cd Length: 131  Bit Score: 35.71  E-value: 6.17e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 635724463  52 DLSQLTGVSRITVRKAMQALEEEGVVTRARGYGTQINNIFEYS 94
Cdd:COG3355   47 ELAEALDRSRSTVYRSLQKLLEAGLVEREKRNLEGGGYPYVYY 89
HTH_Crp_2 pfam13545
Crp-like helix-turn-helix domain; This family represents a crp-like helix-turn-helix domain ...
 51-81 6.20e-03

Crp-like helix-turn-helix domain; This family represents a crp-like helix-turn-helix domain that is likely to bind DNA.


Pssm-ID: 463917 [Multi-domain]  Cd Length: 68  Bit Score: 34.35  E-value: 6.20e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 635724463   51 RDLSQLTGVSRITVRKAMQALEEEGVVTRAR 81
Cdd:pfam13545  26 EDLADLLGTTRETVSRVLSELRREGLIERGR 56
HTH_ICLR smart00346
helix_turn_helix isocitrate lyase regulation;
39-84 8.32e-03

helix_turn_helix isocitrate lyase regulation;


Pssm-ID: 214629 [Multi-domain]  Cd Length: 91  Bit Score: 34.87  E-value: 8.32e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 635724463    39 GVIAHGNILPGE---RDLSQLTGVSRITVRKAMQALEEEGVVTRARGYG 84
Cdd:smart00346   9 AVLRALAEEPGGltlAELAERLGLSKSTAHRLLNTLQELGYVEQDGQNG 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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