NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|516349550|ref|WP_017739583|]
View 

MULTISPECIES: GntR family transcriptional regulator [Pseudomonas]

Protein Classification

GntR family transcriptional regulator( domain architecture ID 11448455)

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

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

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
16-219 1.60e-58

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


:

Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 185.13  E-value: 1.60e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  16 KAGRSGTQDDIVYAHIFEAILEQRLAPGTKLSEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPSVEEARQ 95
Cdd:COG1802    5 SPLRRESLAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPEEIRE 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  96 VFMARRLVERAITELAVQHATAEQLAELRQMVNDERDSFSRGDRGAGIRLSGEFHLKLAEAAKNAPLISFQRSLVSQTSL 175
Cdd:COG1802   85 LYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEAAGNPRLAELLRRLRARLRR 164

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 516349550 176 IIAQ-YESGNRSHCSYDEHTQLIDAIEARDAVLAVDLMMHHMDHI 219
Cdd:COG1802  165 YRRLsLRSPGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERA 209
 
Name Accession Description Interval E-value
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
16-219 1.60e-58

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 185.13  E-value: 1.60e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  16 KAGRSGTQDDIVYAHIFEAILEQRLAPGTKLSEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPSVEEARQ 95
Cdd:COG1802    5 SPLRRESLAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPEEIRE 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  96 VFMARRLVERAITELAVQHATAEQLAELRQMVNDERDSFSRGDRGAGIRLSGEFHLKLAEAAKNAPLISFQRSLVSQTSL 175
Cdd:COG1802   85 LYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEAAGNPRLAELLRRLRARLRR 164

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 516349550 176 IIAQ-YESGNRSHCSYDEHTQLIDAIEARDAVLAVDLMMHHMDHI 219
Cdd:COG1802  165 YRRLsLRSPGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERA 209
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 95-218 2.21e-21

This entry represents the C-terminal ligand binding domain of many members of the GntR family; This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in and that are regulators of sugar biosynthesis operons. Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector binding or oligomerisation domain at the C terminus. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family, and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR, HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA.


Pssm-ID: 214892 [Multi-domain]  Cd Length: 123  Bit Score: 86.26  E-value: 2.21e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550    95 QVFMARRLVERAITELAVQHATAEQLAELRQMVNDERDSFSRGDRGAG-IRLSGEFHLKLAEAAKNAPLISFQRSLVSQT 173
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAGDDLEEfAELDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*
gi 516349550   174 SLIIAQYESGNRSHCsyDEHTQLIDAIEARDAVLAVDLMMHHMDH 218
Cdd:smart00895  81 RRLRRLSLEAARRAL--DEHRAILDAIRARDAEAARAAMREHLEA 123
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 33-217 6.07e-19

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 82.76  E-value: 6.07e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  33 EAILEQR-LAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPS-------VEEARQVFM----- 98
Cdd:PRK03837  23 EQMIRSGeFGPGDQLpSERELMAFFGVGRPAVREALQALKRKGLVQISHGERARVSRPSadtiigqLSGMAKDFLsqspd 102

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  99 -------ARRLVERAITELAVQHATAEQLAELRQMVndERDSFSRGDRGAGIRLSGEFHLKLAEAAKNAPLISFQRSLVs 171
Cdd:PRK03837 103 glahlkqARLFFESSLARYAAEHATDEQIALLRKAL--ERNSQSLGDNAAFIRSDMEFHRVIAEIPGNPIFMAIHEALL- 179

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 516349550 172 qtSLIIAQY----ESGNRSHCSYDEHTQLIDAIEARDAVLAVDLMMHHMD 217
Cdd:PRK03837 180 --DWLIEARpevvILHGHENVTLQEHIAIVDAIRAHDPDEADRALQSHLN 227
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 95-214 9.47e-19

FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR family. This domain binds to a range of effector molecules, including Lactate, Zn(II), Ni(II), Ca(II), Mg(II), citrate, sugar acids, sialic acid and N-acetylglucosamine-6-P, that regulate the transcription of genes through the action of the N-terminal DNA-binding domain pfam00392 (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). This domain is found in Swiss:P45427 and Swiss:P31460 that are regulators of sugar biosynthesis operons. It is also in the known structure of FadR where it binds to acyl-coA, the domain is alpha helical. This family has been named as FCD for (FadR C-terminal Domain).


Pssm-ID: 429623 [Multi-domain]  Cd Length: 121  Bit Score: 79.34  E-value: 9.47e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550   95 QVFMARRLVERAITELAVQHATAEQLAELRQMVNDERDSFSRGDRGAGIRLSGEFHLKLAEAAKNAPLISFQRSLVSQTS 174
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 516349550  175 LIIAQYESG-NRSHCSYDEHTQLIDAIEARDAVLAVDLMMH 214
Cdd:pfam07729  81 RLRRLLLSSpGRLRASLEEHRAILDAIRARDPEAARAAMRR 121
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 27-86 2.93e-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: 70.94  E-value: 2.93e-16
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 516349550  27 VYAHIFEAILEQRLAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVA 86
Cdd:cd07377    6 IADQLREAILSGELKPGDRLpSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 35-86 8.78e-04

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: 39.77  E-value: 8.78e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 516349550   35 ILEQRLAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVA 86
Cdd:TIGR02325  21 IAAGHLRAGDYLpAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVA 73
 
Name Accession Description Interval E-value
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
16-219 1.60e-58

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 185.13  E-value: 1.60e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  16 KAGRSGTQDDIVYAHIFEAILEQRLAPGTKLSEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPSVEEARQ 95
Cdd:COG1802    5 SPLRRESLAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPEEIRE 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  96 VFMARRLVERAITELAVQHATAEQLAELRQMVNDERDSFSRGDRGAGIRLSGEFHLKLAEAAKNAPLISFQRSLVSQTSL 175
Cdd:COG1802   85 LYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEAAGNPRLAELLRRLRARLRR 164

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 516349550 176 IIAQ-YESGNRSHCSYDEHTQLIDAIEARDAVLAVDLMMHHMDHI 219
Cdd:COG1802  165 YRRLsLRSPGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERA 209
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
25-232 2.49e-41

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 141.22  E-value: 2.49e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  25 DIVYAHIFEAILEQRLAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPSVEEA---------- 93
Cdd:COG2186   10 EQVAEQLRELILSGELKPGDRLpSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALldplalllal 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  94 -----RQVFMARRLVERAITELAVQHATAEQLAELRQMVNDERDSFsrGDRGAGIRLSGEFHLKLAEAAKNAPLISFQRS 168
Cdd:COG2186   90 ddaslRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAA--DDGEAFAEADLAFHRAIAEASGNPLLALLLES 167

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 516349550 169 LVSQ-TSLIIAQYESGNRSHCSYDEHTQLIDAIEARDAVLAVDLMMHHMDHIDSKLNLDEESASD 232
Cdd:COG2186  168 LRELlRRSVRLTLRSPEARERSLAEHRAILDAIRAGDPEAARAAMRAHLEAVRERLREALAERAR 232
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 95-218 2.21e-21

This entry represents the C-terminal ligand binding domain of many members of the GntR family; This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in and that are regulators of sugar biosynthesis operons. Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector binding or oligomerisation domain at the C terminus. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family, and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR, HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA.


Pssm-ID: 214892 [Multi-domain]  Cd Length: 123  Bit Score: 86.26  E-value: 2.21e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550    95 QVFMARRLVERAITELAVQHATAEQLAELRQMVNDERDSFSRGDRGAG-IRLSGEFHLKLAEAAKNAPLISFQRSLVSQT 173
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAGDDLEEfAELDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*
gi 516349550   174 SLIIAQYESGNRSHCsyDEHTQLIDAIEARDAVLAVDLMMHHMDH 218
Cdd:smart00895  81 RRLRRLSLEAARRAL--DEHRAILDAIRARDAEAARAAMREHLEA 123
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 33-217 6.07e-19

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 82.76  E-value: 6.07e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  33 EAILEQR-LAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPS-------VEEARQVFM----- 98
Cdd:PRK03837  23 EQMIRSGeFGPGDQLpSERELMAFFGVGRPAVREALQALKRKGLVQISHGERARVSRPSadtiigqLSGMAKDFLsqspd 102

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  99 -------ARRLVERAITELAVQHATAEQLAELRQMVndERDSFSRGDRGAGIRLSGEFHLKLAEAAKNAPLISFQRSLVs 171
Cdd:PRK03837 103 glahlkqARLFFESSLARYAAEHATDEQIALLRKAL--ERNSQSLGDNAAFIRSDMEFHRVIAEIPGNPIFMAIHEALL- 179

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 516349550 172 qtSLIIAQY----ESGNRSHCSYDEHTQLIDAIEARDAVLAVDLMMHHMD 217
Cdd:PRK03837 180 --DWLIEARpevvILHGHENVTLQEHIAIVDAIRAHDPDEADRALQSHLN 227
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 95-214 9.47e-19

FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR family. This domain binds to a range of effector molecules, including Lactate, Zn(II), Ni(II), Ca(II), Mg(II), citrate, sugar acids, sialic acid and N-acetylglucosamine-6-P, that regulate the transcription of genes through the action of the N-terminal DNA-binding domain pfam00392 (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). This domain is found in Swiss:P45427 and Swiss:P31460 that are regulators of sugar biosynthesis operons. It is also in the known structure of FadR where it binds to acyl-coA, the domain is alpha helical. This family has been named as FCD for (FadR C-terminal Domain).


Pssm-ID: 429623 [Multi-domain]  Cd Length: 121  Bit Score: 79.34  E-value: 9.47e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550   95 QVFMARRLVERAITELAVQHATAEQLAELRQMVNDERDSFSRGDRGAGIRLSGEFHLKLAEAAKNAPLISFQRSLVSQTS 174
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 516349550  175 LIIAQYESG-NRSHCSYDEHTQLIDAIEARDAVLAVDLMMH 214
Cdd:pfam07729  81 RLRRLLLSSpGRLRASLEEHRAILDAIRARDPEAARAAMRR 121
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 27-86 2.93e-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: 70.94  E-value: 2.93e-16
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 516349550  27 VYAHIFEAILEQRLAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVA 86
Cdd:cd07377    6 IADQLREAILSGELKPGDRLpSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 25-230 2.76e-15

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 72.88  E-value: 2.76e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  25 DIVYAHIFEAILEQRLAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPSVEEARQ-------- 95
Cdd:PRK10421   5 DEVADRVRALIEEKNLEAGMKLpAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRWRHETWSEQnivqplkt 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  96 -----------VFMARRLVERAITELAVQHATAEQLAELRQMVnderDSFSRGDRGAGIRLSGEFHLKLAEAAKNAPLIS 164
Cdd:PRK10421  85 lmaddpdysfdILEARHAIEASTAWHAAMRATPGDKEKIQLCF----EATLSEDPDLASQADVRFHLAIAEASHNVVLLQ 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 516349550 165 FQRSL--VSQTSLIIAQYE----SGNRSHCSyDEHTQLIDAIEARDAVLAVDLMMHHMDHIDSKLN-LDEESA 230
Cdd:PRK10421 161 TMRGFfdVLQSSVKQSRQRmylvPPVFSQLT-EQHQAVMDAILAGDAEGARKAMMAHLSFVHTTIKrFDEDQA 232
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 27-85 2.43e-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: 65.71  E-value: 2.43e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550   27 VYAHIFEAILEQRLAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVV 85
Cdd:pfam00392   5 VYARLREDILSGRLRPGDKLpSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
27-85 5.17e-13

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 62.21  E-value: 5.17e-13
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550    27 VYAHIFEAILEQRLAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVV 85
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLpSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
PRK10225 PRK10225
Uxu operon transcriptional regulator;
27-235 1.05e-12

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 65.81  E-value: 1.05e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  27 VYAHIFEAILEQRLAPGTKLS-EEALGEIFGVSRTIIRRALSRLAHEGVVLLRpnRGA---VVASPS---VEEARQVF-- 97
Cdd:PRK10225  14 VGAMIRDLIIKTPYNPGERLPpEREIAEMLDVTRTVVREALIMLEIKGLVEVR--RGAgiyVLDSSGshnTDSPDANVcn 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  98 --------MARRLVERAITELAVQHATAEQLAELRQMVNDERDSFSRGDRGAGIRLSGEFHLKLAEAAKNAPLIS-FQRS 168
Cdd:PRK10225  92 dagpfellQARQLLESNIAEFAALQATREDIVKMRQALQLEERELASSAPGSSESGDMQFHLAIAEATHNSMLVElFRQS 171

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550 169 LvsqtsliiaQYESGN------RSHCS--------YDEHTQLIDAIEARDAVLAVDLMMHHMDHIdsKLNLDEESASDDL 234
Cdd:PRK10225 172 W---------QWRENNpmwiqlHSHLDdslyrkewLGDHKQILAALIKKDARAAKLAMWQHLENV--KQRLLEFSNVDDI 240


                 .
gi 516349550 235 H 235
Cdd:PRK10225 241 Y 241
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
27-93 1.55e-12

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 65.27  E-value: 1.55e-12
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 516349550  27 VYAHIFEAILEQRLAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPSVEEA 93
Cdd:COG2188   10 IADALRERIESGELPPGDRLpSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEPKIEYP 77
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 27-95 1.43e-06

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: 48.67  E-value: 1.43e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  27 VYAHIFEAILEQRLAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPSVEEARQ 95
Cdd:COG1167   17 LADALREAILSGRLPPGDRLpSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSGTFVAARLPAPAPA 86
PRK11534 PRK11534
DNA-binding transcriptional regulator CsiR; Provisional
 35-216 3.39e-06

DNA-binding transcriptional regulator CsiR; Provisional


Pssm-ID: 183181 [Multi-domain]  Cd Length: 224  Bit Score: 46.81  E-value: 3.39e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  35 ILEQRLAPGTKLSEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPSVEEARQVFMARRLVERAITELAVQH 114
Cdd:PRK11534  20 IIRGNFQPDEKLRMSLLTSRYALGVGPLREALSQLVAERLVTVVNQKGYRVASMSEQELLDIFDARANMEAMLVSLAIAR 99

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550 115 ----------ATAEQLAEL-----RQMVNDERDSFSRGDRGAGIRLSGEFHL-----KLAEAAKNAPLISFQRSLVSQTS 174
Cdd:PRK11534 100 ggdeweadvlAKAHLLSKLeacdaSEKMLDEWDLRHQAFHTAIVAGCGSHYLlqmreRLFDLAARYRFIWLRRTVLSVEM 179

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 516349550 175 LiiaqyesgnrsHCSYDEHTQLIDAIEARDAVLAVDLMMHHM 216
Cdd:PRK11534 180 L-----------EDKHDQHQTLTAAILARDTARASELMRQHL 210
PRK11402 PRK11402
transcriptional regulator PhoB;
34-93 2.49e-05

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 44.44  E-value: 2.49e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  34 AILEQRLA---------PGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPSVEEA 93
Cdd:PRK11402  12 ATVRQRLLddiaqgvyqAGQQIpTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQSQKVENA 81
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
25-228 2.42e-04

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 41.54  E-value: 2.42e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  25 DIVYAHIFEAILEQRLAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVV--------ASPSVE---- 91
Cdd:PRK09464  13 DVIEQQLEFLILEGTLRPGEKLpPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVqsslwqsfSDPLVEllsd 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  92 --EAR-QVFMARRLVERAITELAVQHATAEQLAELRQMVNDERDSFSRGDRGAGIRLSGEFHLKLAEAAKNAPLISFQRS 168
Cdd:PRK09464  93 hpESQfDLLETRHALEGIAAYYAALRGTDEDFERIRECHHAIELAQQSGDLDAEANAVMQYQIAVTEAAHNVVLLHLLRC 172

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 516349550 169 LVSQTSLIIAQ-----YESGNRSHCSYDEHTQLIDAIEARDAVLAVDLMMHHMDHI-DSKLNLDEE 228
Cdd:PRK09464 173 MEPMLEQNVRQnfellYRRREMLPKVSSHRARIFEAIVAGKPEKAREASHRHLAFIeEILLDLSRE 238
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 35-86 8.78e-04

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: 39.77  E-value: 8.78e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 516349550   35 ILEQRLAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVA 86
Cdd:TIGR02325  21 IAAGHLRAGDYLpAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVA 73
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
31-73 9.03e-04

fatty acid metabolism transcriptional regulator FadR;


Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 39.47  E-value: 9.03e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 516349550  31 IFEAILEQRLAPGTKL-SEEALGEIFGVSRTIIRRALSRLAHEG 73
Cdd:PRK04984  16 IIESIWNNRFPPGSILpAERELSELIGVTRTTLREVLQRLARDG 59
PRK11523 PRK11523
transcriptional regulator ExuR;
43-233 1.68e-03

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 38.67  E-value: 1.68e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  43 GTKL-SEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRG----------AVVASPSVEEAR----QVFMARRLVERAI 107
Cdd:PRK11523  29 GDKLpAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKGSGihvvsnqprhQQAADNNMEFANygpfELLQARQLIESNI 108

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550 108 TELAVQHATAEQLAELRQMVNDERDSfsrgDRGAGIRLSGEFHLKLAEAAKNAPLISFQRSLVSQtsliiaqyesgnRSH 187
Cdd:PRK11523 109 AEFAATQVTKQDIMKLMAIQEQARGE----DCFRDSEWDLQFHVQVALATQNSALAAIVEKMWTQ------------RSH 172

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 516349550 188 CSY-----------------DEHTQLIDAIEARDAVLAVDLMMHHMDhiDSKLNLDEESASDD 233
Cdd:PRK11523 173 NPYwkklhehiddrtvdnwcDDHDQILKALIRKDPHAAKLAMWQHLE--NTKQMLFNETSDDF 233
PRK11050 PRK11050
manganese-binding transcriptional regulator MntR;
55-122 3.78e-03

manganese-binding transcriptional regulator MntR;


Pssm-ID: 182927 [Multi-domain]  Cd Length: 152  Bit Score: 36.91  E-value: 3.78e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 516349550  55 FGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPSVEEARQVFMARRLVERAITELAVQHATAEQLAE 122
Cdd:PRK11050  61 LGVSQPTVAKMLKRLARDGLVEMRPYRGVFLTPEGEKLAQESRERHQIVENFLLALGVSPETARRDAE 128
PRK11414 PRK11414
GntR family transcriptional regulator;
40-138 3.93e-03

GntR family transcriptional regulator;


Pssm-ID: 183126 [Multi-domain]  Cd Length: 221  Bit Score: 37.54  E-value: 3.93e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 516349550  40 LAPGTKLSEEALGEIFGVSRTIIRRALSRLAHEGVVLLRPNRGAVVASPSVEEARQVFMARRLVERAITELAVQHATAEQ 119
Cdd:PRK11414  29 LKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQAFTVPEVSKRQLDEINRIRYELELMAVALAVENLTPQD 108

                         90
                 ....*....|....*....
gi 516349550 120 LAELRQMVNDERDSFSRGD 138
Cdd:PRK11414 109 LAELQELLEKLQQAQEKGD 127
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 33-82 9.37e-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: 33.56  E-value: 9.37e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 516349550   33 EAILEQRLAPGTKLSEEALGEIFGVSRTIIRRALSRLAHEGV-VLLRPNRG 82
Cdd:pfam08279   1 LQILQLLLEARGPISGQELAEKLGVSRRTIRRDIKILEELGVpIEAEPGRG 51
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH