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Conserved domains on  [gi|16131928|ref|NP_418526|]
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putative transcriptional regulator PhnF [Escherichia coli str. K-12 substr. MG1655]

Protein Classification

phosphonate metabolism transcriptional regulator PhnF( domain architecture ID 11484569)

phosphonate metabolism transcriptional regulator PhnF belongs to an operon involved in alkylphosphonate uptake and C-P lyase

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10079 PRK10079
phosphonate metabolism transcriptional regulator PhnF; Provisional
 1-241 8.55e-172

phosphonate metabolism transcriptional regulator PhnF; Provisional


:

Pssm-ID: 182227 [Multi-domain]  Cd Length: 241  Bit Score: 472.34  E-value: 8.55e-172
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928    1 MHLSTHPTSYPTRYQEIAAKLEQELRQHYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPF 80
Cdd:PRK10079   1 MHLSRHPTSYPTRYQEIAAKLEQELRQHYRCGDYLPAEQQLAARYEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928   81 DYPLNAQARFSQNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFADLTLWPTLQ 160
Cdd:PRK10079  81 DYPLNAQARFSQNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFADLTWWPTLQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928  161 RFDSGSLHDFLREQTGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNHRDGESSPAEYSVSLTRADMIEFTME 240
Cdd:PRK10079 161 RFDSGSLHDFLREQLGIALRRSQTRISARRAQAKESQLLEIPNMSPLLCVRTLNHRDGESSPAEYSVSLTRADMIEFTME 240


                 .
gi 16131928  241 H 241
Cdd:PRK10079 241 H 241
 
Name Accession Description Interval E-value
PRK10079 PRK10079
phosphonate metabolism transcriptional regulator PhnF; Provisional
 1-241 8.55e-172

phosphonate metabolism transcriptional regulator PhnF; Provisional


Pssm-ID: 182227 [Multi-domain]  Cd Length: 241  Bit Score: 472.34  E-value: 8.55e-172
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928    1 MHLSTHPTSYPTRYQEIAAKLEQELRQHYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPF 80
Cdd:PRK10079   1 MHLSRHPTSYPTRYQEIAAKLEQELRQHYRCGDYLPAEQQLAARYEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928   81 DYPLNAQARFSQNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFADLTLWPTLQ 160
Cdd:PRK10079  81 DYPLNAQARFSQNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFADLTWWPTLQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928  161 RFDSGSLHDFLREQTGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNHRDGESSPAEYSVSLTRADMIEFTME 240
Cdd:PRK10079 161 RFDSGSLHDFLREQLGIALRRSQTRISARRAQAKESQLLEIPNMSPLLCVRTLNHRDGESSPAEYSVSLTRADMIEFTME 240


                 .
gi 16131928  241 H 241
Cdd:PRK10079 241 H 241
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 5-241 1.27e-125

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: 355.63  E-value: 1.27e-125
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928     5 THPTSYPTRYQEIAAKLEQELRQ-HYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPFDYP 83
Cdd:TIGR02325   1 IERTSGVALWRQIADKIEQEIAAgHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVAARRIDYP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928    84 LNAQARFSQNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFADLTLWPTLQRFD 163
Cdd:TIGR02325  81 LSARTRFSQNLADQGREPTGELLLSDLEPASAELADALGLTVGAPLVRLETLRKADGRPLCRATTWFPAARFPGIGQAYA 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 16131928   164 -SGSLHDFLREQTGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNHrDGESSPAEYSVSLTRADMIEFTMEH 241
Cdd:TIGR02325 161 aSGSITDALREQGVADYRRSSTRISARHADAKDCARLELPPGRPLLVVQALNH-DGEGRPVQYSVSRFRADRVEFTMEN 238
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
13-240 1.58e-63

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 198.16  E-value: 1.58e-63
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928  13 RYQEIAAKLEQELRQ-HYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPFDYPLNAQARFS 91
Cdd:COG2188   6 LYLQIADALRERIESgELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEPKIEYPLSRLTSFT 85

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928  92 QNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFaDLTLWPTL--QRFDSGSLHD 169
Cdd:COG2188  86 EELRARGREPSTRVLSAERVPADEEVAEALGLPPGAPVLRIERLRLADGEPVALETSYL-PAALFPGLleEDLETGSLYE 164

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 16131928 170 FLREQTGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNHrDGESSPAEYSVSLTRADMIEFTME 240
Cdd:COG2188 165 LLEERYGLRITRAEQRIEAVLADAEEAELLGVPPGAPVLVIERVTY-DADGRPVEYSRSYYRGDRYRFVVE 234
UTRA pfam07702
UTRA domain; The UbiC transcription regulator-associated (UTRA) domain is a conserved ...
 96-236 4.77e-35

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: 121.93  E-value: 4.77e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928    96 DQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYF-ADLTLWPTLQRFDSGSLHDFLREQ 174
Cdd:pfam07702   1 AQGREPKTEVLSLEEVPASAEIAEALGLPPGEPVYRIERLRYADGEPVALEEDYLpAELVPDLLEEDLEEGSLYDYLEER 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 16131928   175 TGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNHrDGESSPAEYSVSLTRADMIE 236
Cdd:pfam07702  81 YGLPITRAEQTIEAVLADAEEAELLGISPGAPVLLIERVTY-DQDGRPVEYSRSYYRGDRYR 141
UTRA smart00866
The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; ...
 96-236 3.27e-27

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: 101.60  E-value: 3.27e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928     96 DQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFADLTLWPTLQRFDSGSLHDFLREQ- 174
Cdd:smart00866   1 AQGRKPTTKVLSFERVPADEELAEALGLPPGDPVYRIERLRLADGEPVALETTYLPAALFPGLLEEDLSGSLYEYLEERl 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 16131928    175 --TGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNHrDGESSPAEYSVSLTRADMIE 236
Cdd:smart00866  81 glKIVRSTRAEQTITAVLADEEEAELLGLPPGAPLLVVERVTY-DDDGRPVEYSRSYYRGDRFR 143
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 12-75 1.32e-16

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: 71.71  E-value: 1.32e-16
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 16131928  12 TRYQEIAAKLEQELRQH-YRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLV 75
Cdd:cd07377   1 PLYEQIADQLREAILSGeLKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFV 65
 
Name Accession Description Interval E-value
PRK10079 PRK10079
phosphonate metabolism transcriptional regulator PhnF; Provisional
 1-241 8.55e-172

phosphonate metabolism transcriptional regulator PhnF; Provisional


Pssm-ID: 182227 [Multi-domain]  Cd Length: 241  Bit Score: 472.34  E-value: 8.55e-172
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928    1 MHLSTHPTSYPTRYQEIAAKLEQELRQHYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPF 80
Cdd:PRK10079   1 MHLSRHPTSYPTRYQEIAAKLEQELRQHYRCGDYLPAEQQLAARYEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928   81 DYPLNAQARFSQNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFADLTLWPTLQ 160
Cdd:PRK10079  81 DYPLNAQARFSQNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFADLTWWPTLQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928  161 RFDSGSLHDFLREQTGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNHRDGESSPAEYSVSLTRADMIEFTME 240
Cdd:PRK10079 161 RFDSGSLHDFLREQLGIALRRSQTRISARRAQAKESQLLEIPNMSPLLCVRTLNHRDGESSPAEYSVSLTRADMIEFTME 240


                 .
gi 16131928  241 H 241
Cdd:PRK10079 241 H 241
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 5-241 1.27e-125

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: 355.63  E-value: 1.27e-125
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928     5 THPTSYPTRYQEIAAKLEQELRQ-HYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPFDYP 83
Cdd:TIGR02325   1 IERTSGVALWRQIADKIEQEIAAgHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVAARRIDYP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928    84 LNAQARFSQNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFADLTLWPTLQRFD 163
Cdd:TIGR02325  81 LSARTRFSQNLADQGREPTGELLLSDLEPASAELADALGLTVGAPLVRLETLRKADGRPLCRATTWFPAARFPGIGQAYA 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 16131928   164 -SGSLHDFLREQTGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNHrDGESSPAEYSVSLTRADMIEFTMEH 241
Cdd:TIGR02325 161 aSGSITDALREQGVADYRRSSTRISARHADAKDCARLELPPGRPLLVVQALNH-DGEGRPVQYSVSRFRADRVEFTMEN 238
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
13-240 1.58e-63

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 198.16  E-value: 1.58e-63
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928  13 RYQEIAAKLEQELRQ-HYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPFDYPLNAQARFS 91
Cdd:COG2188   6 LYLQIADALRERIESgELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEPKIEYPLSRLTSFT 85

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928  92 QNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFaDLTLWPTL--QRFDSGSLHD 169
Cdd:COG2188  86 EELRARGREPSTRVLSAERVPADEEVAEALGLPPGAPVLRIERLRLADGEPVALETSYL-PAALFPGLleEDLETGSLYE 164

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 16131928 170 FLREQTGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNHrDGESSPAEYSVSLTRADMIEFTME 240
Cdd:COG2188 165 LLEERYGLRITRAEQRIEAVLADAEEAELLGVPPGAPVLVIERVTY-DADGRPVEYSRSYYRGDRYRFVVE 234
UTRA pfam07702
UTRA domain; The UbiC transcription regulator-associated (UTRA) domain is a conserved ...
 96-236 4.77e-35

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: 121.93  E-value: 4.77e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928    96 DQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYF-ADLTLWPTLQRFDSGSLHDFLREQ 174
Cdd:pfam07702   1 AQGREPKTEVLSLEEVPASAEIAEALGLPPGEPVYRIERLRYADGEPVALEEDYLpAELVPDLLEEDLEEGSLYDYLEER 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 16131928   175 TGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNHrDGESSPAEYSVSLTRADMIE 236
Cdd:pfam07702  81 YGLPITRAEQTIEAVLADAEEAELLGISPGAPVLLIERVTY-DQDGRPVEYSRSYYRGDRYR 141
UTRA smart00866
The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; ...
 96-236 3.27e-27

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: 101.60  E-value: 3.27e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928     96 DQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFADLTLWPTLQRFDSGSLHDFLREQ- 174
Cdd:smart00866   1 AQGRKPTTKVLSFERVPADEELAEALGLPPGDPVYRIERLRLADGEPVALETTYLPAALFPGLLEEDLSGSLYEYLEERl 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 16131928    175 --TGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNHrDGESSPAEYSVSLTRADMIE 236
Cdd:smart00866  81 glKIVRSTRAEQTITAVLADEEEAELLGLPPGAPLLVVERVTY-DDDGRPVEYSRSYYRGDRFR 143
PRK11402 PRK11402
transcriptional regulator PhoB;
5-240 7.57e-22

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 90.28  E-value: 7.57e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928    5 THPTSYPTRYQEIAAKLEQELrqhYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPFDYPL 84
Cdd:PRK11402   6 SHQLLYATVRQRLLDDIAQGV---YQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQSQKVENAL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928   85 NAQARFSQNLLDQGShPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCL-IDHYfaDLTLWPTLQRF- 162
Cdd:PRK11402  83 LTVSGFTDFGVSQGK-ATKEKVIEQERVSAAPFCEKLNIPGNSEVFHLCRVMYLDKEPLFIdSSWI--PLSRYPDFDEIy 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 16131928  163 -DSGSLHDFLREQTGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNHrDGESSPAEYSVSLTRADMIEFTME 240
Cdd:PRK11402 160 vEGSSTYQLFQERFDTRVVSDKKTIDIFAATRPEAKWLKCELGEPLFRISKIAF-DQNDKPVHVSELFCRANRVTLTID 237
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 14-75 7.66e-20

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: 79.97  E-value: 7.66e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 16131928    14 YQEIAAKLEQELRQ-HYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLV 75
Cdd:pfam00392   2 YEQVYARLREDILSgRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
17-75 3.16e-18

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 75.69  E-value: 3.16e-18
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928     17 IAAKLEQELRQH-YRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLV 75
Cdd:smart00345   1 VAERLREDIVSGeLRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
PRK09764 PRK09764
GntR family transcriptional regulator;
13-239 1.80e-17

GntR family transcriptional regulator;


Pssm-ID: 182065 [Multi-domain]  Cd Length: 240  Bit Score: 78.72  E-value: 1.80e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928   13 RYQEIAAKLEQELRQ-HYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPFDYPLNAQARFS 91
Cdd:PRK09764   6 LYRQIADRIREQIARgELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESIQGSGTYVKEERVNYDIFQLTSFD 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928   92 QNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHY-----FADLTlWPTLQRfdsgS 166
Cdd:PRK09764  86 EKLSDRHVDTHSEVLIFEVIPADDFLQQQLQITAQDRVWHVKRVRYRKQKPMALEETWmplalFPDLT-WQVMEN----S 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 16131928  167 LHDFLREQTGIALRRSQTRISARRAQAKECQRLEIPNMSPLLCVRTLNH-RDGESspAEYSVSLTRADMIEFTM 239
Cdd:PRK09764 161 KYHFIEEVKKMVIDRSEQEIIPLMPTEEMSRLLNISQTKPILEKVSRGYlVDGRV--FEYSRNAFNTDDYKFTL 232
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 12-75 1.32e-16

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: 71.71  E-value: 1.32e-16
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 16131928  12 TRYQEIAAKLEQELRQH-YRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLV 75
Cdd:cd07377   1 PLYEQIADQLREAILSGeLKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFV 65
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
7-79 3.43e-13

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 66.50  E-value: 3.43e-13
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 16131928   7 PTSYPTRYQEIAAKLEQELRQ-HYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRP 79
Cdd:COG2186   2 PIRRRSLAEQVAEQLRELILSgELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPS 75
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 1-72 1.60e-09

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: 57.15  E-value: 1.60e-09
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 16131928   1 MHLSTHPTSYPTRYQEIAAKLEQELRQ-HYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVG 72
Cdd:COG1167   1 MLIRLDRDSSGPLYLQLADALREAILSgRLPPGDRLPSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSG 73
PRK14999 PRK14999
histidine utilization repressor; Provisional
 10-211 3.15e-09

histidine utilization repressor; Provisional


Pssm-ID: 184961 [Multi-domain]  Cd Length: 241  Bit Score: 55.71  E-value: 3.15e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928   10 YPTRYQEIAAKLEQELrqhYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPFDYPLNAQAR 89
Cdd:PRK14999  14 YETVKQDICKKIAGGV---WQPHDRIPSEAELVAQYGFSRMTINRALRELTDEGWLVRLQGVGTFVAEPKGQSALFEVRS 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131928   90 FSQNLLDQGSHPTSEKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYF-ADLTLWPTLQRFDSGSLH 168
Cdd:PRK14999  91 IAEEIAARRHQHRCEVLTLERVRANAIQASALNVNESDVIFHSIMVHYENDLPVQIEDRCVnADIAVDYLTQDYRQTTPH 170

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 16131928  169 DFLREqtgIA-LRRSQTRISARRAQAKECQRLEIPNMSPLLCVR 211
Cdd:PRK14999 171 AYLSR---IApLTEGEHIVEAVRATAQECAWLTIKEHEPCLLIR 211
PRK10225 PRK10225
Uxu operon transcriptional regulator;
14-76 1.56e-07

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 50.79  E-value: 1.56e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 16131928   14 YQEIAAKLEQELRQH-YRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVL 76
Cdd:PRK10225  11 YQEVGAMIRDLIIKTpYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAGIYVL 74
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
8-75 2.25e-07

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 50.40  E-value: 2.25e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 16131928    8 TSYPTRYQEIAAKLEQELRQ-----HYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLV 75
Cdd:PRK09464   2 AYSKIRQPKLSDVIEQQLEFlilegTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFV 74
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
14-75 2.44e-07

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


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 47.87  E-value: 2.44e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 16131928  14 YQEIAAKLEQE-LRQHYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLV 75
Cdd:COG1725  12 YEQIADQIKEAiASGELKPGDRLPSVRELAAELGVNPNTVAKAYRELEDEGLIETRRGKGTFV 74
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 16-83 4.09e-07

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 49.38  E-value: 4.09e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 16131928   16 EIAAKLEQELR-QHYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPFDYP 83
Cdd:PRK10421   6 EVADRVRALIEeKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRWRHETWS 74
PRK11523 PRK11523
transcriptional regulator ExuR;
11-76 5.75e-07

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 49.07  E-value: 5.75e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 16131928   11 PTR-YQEIAAKLEQELRQ-HYRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVL 76
Cdd:PRK11523   6 PRRlYQQLAAELKERIEQgVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKGSGIHVV 73
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 14-70 2.07e-04

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 41.55  E-value: 2.07e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 16131928   14 YQEIAAKLEQELRQH-YRCGDYLPAEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQG 70
Cdd:PRK03837  15 SEEVEERLEQMIRSGeFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQISHG 72
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
4-81 6.81e-04

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 39.52  E-value: 6.81e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 16131928   4 STHPTSYPTRYQEIAAKLEQE-LRQHYRCGDYLPaEQQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVlmRPFD 81
Cdd:COG1802   3 SPSPLRRESLAEQVYEALREAiLSGELPPGERLS-EAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARV--APLS 78
MarR pfam01047
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 39-69 4.09e-03

MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.


Pssm-ID: 426012 [Multi-domain]  Cd Length: 59  Bit Score: 34.83  E-value: 4.09e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 16131928    39 QQLAARFEVNRHTLRRAIDQLVEKGWVQRRQ 69
Cdd:pfam01047  21 SELAEKLGVSKSTVTRVLDRLEKKGLIERSR 51
MarR_2 pfam12802
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 39-72 7.88e-03

MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.


Pssm-ID: 432797 [Multi-domain]  Cd Length: 60  Bit Score: 34.10  E-value: 7.88e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 16131928    39 QQLAARFEVNRHTLRRAIDQLVEKGWVQRRQGVG 72
Cdd:pfam12802  23 AELARRLGISKQTVSRLVKRLEAKGLVEREPSPA 56
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
39-69 8.14e-03

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 34.88  E-value: 8.14e-03
                           10        20        30
                   ....*....|....*....|....*....|.
gi 16131928     39 QQLAARFEVNRHTLRRAIDQLVEKGWVQRRQ 69
Cdd:smart00347  28 SELAKRLGVSPSTVTRVLDRLEKKGLVRREP 58
 
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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