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Conserved domains on  [gi|817530858|ref|WP_046581098|]
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FadR/GntR family transcriptional regulator [Burkholderia gladioli]

Protein Classification

FadR/GntR family transcriptional regulator( domain architecture ID 11450686)

helix-turn-helix transcriptional regulator belonging to the GntR family, which contains FadR, HutC, MocR, YtrA, AraR, PlmA, and many other subfamilies

CATH:  1.10.10.10
Gene Ontology:  GO:0003677|GO:0003700
PubMed:  2060763
SCOP:  4000155

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
4-235 1.36e-50

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


:

Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 165.49  E-value: 1.36e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858   4 QPIQNRRLYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVRQPEagata 83
Cdd:COG2186    1 KPIRRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPS----- 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  84 aalpvraaasglpdvPDRKLAPLGivevdpelgiALDLDTEIPPFALLQARRLIEPEAAALAAKHGSQTQIAAIHAAFLR 163
Cdd:COG2186   76 ---------------PWALLDPLA----------LLLALDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAE 130

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 817530858 164 NQEDNRSGSLTHPGDRLFHIRIAEASDNPAYALIIKQLlahkYDPMFRRLQSLYMSNDMPHRSELEHRAVLD 235
Cdd:COG2186  131 MEAAADDGEAFAEADLAFHRAIAEASGNPLLALLLESL----RELLRRSVRLTLRSPEARERSLAEHRAILD 198
 
Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
4-235 1.36e-50

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 165.49  E-value: 1.36e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858   4 QPIQNRRLYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVRQPEagata 83
Cdd:COG2186    1 KPIRRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPS----- 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  84 aalpvraaasglpdvPDRKLAPLGivevdpelgiALDLDTEIPPFALLQARRLIEPEAAALAAKHGSQTQIAAIHAAFLR 163
Cdd:COG2186   76 ---------------PWALLDPLA----------LLLALDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAE 130

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 817530858 164 NQEDNRSGSLTHPGDRLFHIRIAEASDNPAYALIIKQLlahkYDPMFRRLQSLYMSNDMPHRSELEHRAVLD 235
Cdd:COG2186  131 MEAAADDGEAFAEADLAFHRAIAEASGNPLLALLLESL----RELLRRSVRLTLRSPEARERSLAEHRAILD 198
PRK11523 PRK11523
transcriptional regulator ExuR;
9-213 7.60e-26

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 101.85  E-value: 7.60e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858   9 RRLYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVrqpeagataaalpv 88
Cdd:PRK11523   7 RRLYQQLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKGSGIHV-------------- 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  89 raaasgLPDVPDRKLAPLGIVEVDpelgialdldtEIPPFALLQARRLIEPEAAALAAKHGSQTQIAAIHA--AFLRNQE 166
Cdd:PRK11523  73 ------VSNQPRHQQAADNNMEFA-----------NYGPFELLQARQLIESNIAEFAATQVTKQDIMKLMAiqEQARGED 135

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 817530858 167 DNRSGSLthpgDRLFHIRIAEASDNPAYALIIKQLLAHK-YDPMFRRL 213
Cdd:PRK11523 136 CFRDSEW----DLQFHVQVALATQNSALAAIVEKMWTQRsHNPYWKKL 179
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 11-75 1.18e-21

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: 85.58  E-value: 1.18e-21
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 817530858  11 LYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVR 75
Cdd:cd07377    2 LYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 11-74 2.12e-19

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: 79.58  E-value: 2.12e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 817530858   11 LYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKV 74
Cdd:pfam00392   1 LYEQVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
15-74 1.41e-17

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 74.53  E-value: 1.41e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858    15 IADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKV 74
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 11-74 2.56e-12

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: 64.80  E-value: 2.56e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 817530858   11 LYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKV 74
Cdd:TIGR02325   9 LWRQIADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFV 72
 
Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
4-235 1.36e-50

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 165.49  E-value: 1.36e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858   4 QPIQNRRLYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVRQPEagata 83
Cdd:COG2186    1 KPIRRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPS----- 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  84 aalpvraaasglpdvPDRKLAPLGivevdpelgiALDLDTEIPPFALLQARRLIEPEAAALAAKHGSQTQIAAIHAAFLR 163
Cdd:COG2186   76 ---------------PWALLDPLA----------LLLALDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAE 130

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 817530858 164 NQEDNRSGSLTHPGDRLFHIRIAEASDNPAYALIIKQLlahkYDPMFRRLQSLYMSNDMPHRSELEHRAVLD 235
Cdd:COG2186  131 MEAAADDGEAFAEADLAFHRAIAEASGNPLLALLLESL----RELLRRSVRLTLRSPEARERSLAEHRAILD 198
PRK11523 PRK11523
transcriptional regulator ExuR;
9-213 7.60e-26

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 101.85  E-value: 7.60e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858   9 RRLYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVrqpeagataaalpv 88
Cdd:PRK11523   7 RRLYQQLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKGSGIHV-------------- 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  89 raaasgLPDVPDRKLAPLGIVEVDpelgialdldtEIPPFALLQARRLIEPEAAALAAKHGSQTQIAAIHA--AFLRNQE 166
Cdd:PRK11523  73 ------VSNQPRHQQAADNNMEFA-----------NYGPFELLQARQLIESNIAEFAATQVTKQDIMKLMAiqEQARGED 135

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 817530858 167 DNRSGSLthpgDRLFHIRIAEASDNPAYALIIKQLLAHK-YDPMFRRL 213
Cdd:PRK11523 136 CFRDSEW----DLQFHVQVALATQNSALAAIVEKMWTQRsHNPYWKKL 179
PRK10225 PRK10225
Uxu operon transcriptional regulator;
9-234 1.79e-25

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 101.25  E-value: 1.79e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858   9 RRLYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVRqpeagataaalpv 88
Cdd:PRK10225   8 QRPYQEVGAMIRDLIIKTPYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAGIYVL------------- 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  89 raaasglpDVPDrklaPLGIVEVDpelgiaLDLDTEIPPFALLQARRLIEPEAAALAAKHGSQTQIAAIHAAFLRNQEDN 168
Cdd:PRK10225  75 --------DSSG----SHNTDSPD------ANVCNDAGPFELLQARQLLESNIAEFAALQATREDIVKMRQALQLEEREL 136

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 817530858 169 RSGSLTHP--GDRLFHIRIAEASDNPAYALIIKQLLA-HKYDPMFRRLQSLYmsNDMPHRSE--LEHRAVL 234
Cdd:PRK10225 137 ASSAPGSSesGDMQFHLAIAEATHNSMLVELFRQSWQwRENNPMWIQLHSHL--DDSLYRKEwlGDHKQIL 205
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 1-203 1.88e-25

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 100.48  E-value: 1.88e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858   1 MSIQPIQNRRLYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVRQPEAG 80
Cdd:PRK03837   4 LRSRPIARKKLSEEVEERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQISHGERARVSRPSAD 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  81 ATaaalpvraaasglpdvpdrklaplgIVEVDpelGIALDLDTEIPPFA--LLQARRLIEPEAAALAAKHGSQTQIAAIH 158
Cdd:PRK03837  84 TI-------------------------IGQLS---GMAKDFLSQSPDGLahLKQARLFFESSLARYAAEHATDEQIALLR 135

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 817530858 159 AAFLRNQEDNRSGSLTHPGDRLFHIRIAEASDNPAYALIIKQLLA 203
Cdd:PRK03837 136 KALERNSQSLGDNAAFIRSDMEFHRVIAEIPGNPIFMAIHEALLD 180
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
2-235 1.01e-21

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 89.98  E-value: 1.01e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858   2 SIQPIQNRRLYQQIADKLGALIEAGDFPPGSYLPpERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVRQPEAGA 81
Cdd:COG1802    3 SPSPLRRESLAEQVYEALREAILSGELPPGERLS-EAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPEE 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  82 taaalpvraaasglpdvpdrklaplgIVEvdpelgialdldteippfaLLQARRLIEPEAAALAAKHGSQTQIAAIHAAF 161
Cdd:COG1802   82 --------------------------IRE-------------------LYEVRAALEGLAARLAAERATPADLARLRALL 116

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 817530858 162 LRNQEDNRSGSLT--HPGDRLFHIRIAEASDNPAYALIIKQLLAHkydpMFRRLQSLYMSNDMPHRSELEHRAVLD 235
Cdd:COG1802  117 EELEAAAAAGDVAayLELDREFHRALVEAAGNPRLAELLRRLRAR----LRRYRRLSLRSPGRLEESLAEHRAILD 188
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 11-75 1.18e-21

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: 85.58  E-value: 1.18e-21
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 817530858  11 LYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVR 75
Cdd:cd07377    2 LYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 11-74 2.12e-19

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: 79.58  E-value: 2.12e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 817530858   11 LYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKV 74
Cdd:pfam00392   1 LYEQVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 9-191 1.28e-18

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 82.51  E-value: 1.28e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858   9 RRLYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVRQPEAgataaalpv 88
Cdd:PRK10421   1 RRLSDEVADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRWRHE--------- 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  89 raaasglPDVPDRKLAPL-GIVEVDPELGialdldteippFALLQARRLIEPEAAALAAKHGSQTQIAAIHAAFLRNQED 167
Cdd:PRK10421  72 -------TWSEQNIVQPLkTLMADDPDYS-----------FDILEARHAIEASTAWHAAMRATPGDKEKIQLCFEATLSE 133

                        170       180
                 ....*....|....*....|....
gi 817530858 168 NrsGSLTHPGDRLFHIRIAEASDN 191
Cdd:PRK10421 134 D--PDLASQADVRFHLAIAEASHN 155
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
11-77 1.58e-18

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 81.83  E-value: 1.58e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 817530858  11 LYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVRQP 77
Cdd:COG2188    6 LYLQIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEP 72
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
15-74 1.41e-17

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 74.53  E-value: 1.41e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858    15 IADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKV 74
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
1-191 8.92e-14

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 68.89  E-value: 8.92e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858   1 MSIQPIQNRRLYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVRQpeag 80
Cdd:PRK09464   1 MAYSKIRQPKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQS---- 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  81 ataaalpvrAAASGLPDvpdrklaPL-GIVEVDPElgialdldteiPPFALLQARRLIEPEAAALAAKHGSQTQIAAIHA 159
Cdd:PRK09464  77 ---------SLWQSFSD-------PLvELLSDHPE-----------SQFDLLETRHALEGIAAYYAALRGTDEDFERIRE 129

                        170       180       190
                 ....*....|....*....|....*....|....
gi 817530858 160 AFLRNQEDNRSGSLTHPGDRL--FHIRIAEASDN 191
Cdd:PRK09464 130 CHHAIELAQQSGDLDAEANAVmqYQIAVTEAAHN 163
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 11-115 3.61e-13

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


Pssm-ID: 440781 [Multi-domain]  Cd Length: 471  Bit Score: 68.70  E-value: 3.61e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  11 LYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVR-QPEAGATAAALPVR 89
Cdd:COG1167   13 LYLQLADALREAILSGRLPPGDRLPSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSGTFVAaRLPAPAPAPRAAAA 92

                         90       100
                 ....*....|....*....|....*...
gi 817530858  90 AAASGLPDV--PDRKLAPLGIVEVDPEL 115
Cdd:COG1167   93 VAAPALRRLleAAPGVIDLGSGAPDPDL 120
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 11-74 2.56e-12

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: 64.80  E-value: 2.56e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 817530858   11 LYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKV 74
Cdd:TIGR02325   9 LWRQIADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFV 72
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 130-235 3.36e-12

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: 61.99  E-value: 3.36e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858   130 LLQARRLIEPEAAALAAKHGSQTQIA---AIHAAFLRNQEDNRSGSLTHPGDRLFHIRIAEASDNPAYALIIKQLLAHky 206
Cdd:smart00895   2 LYEVRRALEPLAARLAAERATDEDLAaleALLDAMEAAAAAGDDLEEFAELDREFHRALAEAAGNPVLLELLESLRAR-- 79

                           90       100
                   ....*....|....*....|....*....
gi 817530858   207 dpmfrRLQSLYMSNDMPHRSELEHRAVLD 235
Cdd:smart00895  80 -----LRRLRRLSLEAARRALDEHRAILD 103
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 130-235 1.91e-11

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: 59.69  E-value: 1.91e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  130 LLQARRLIEPEAAALAAKHGSQTQIAAIHAAFLRNQEDNRSGSLTHPG--DRLFHIRIAEASDNPAYALIIKQLLAHkyd 207
Cdd:pfam07729   2 LYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAeaDREFHLALAEAAGNPVLARMLESLWDR--- 78

                          90       100
                  ....*....|....*....|....*...
gi 817530858  208 pMFRRLQSLYMSNDMPHRSELEHRAVLD 235
Cdd:pfam07729  79 -LRRLRRLLLSSPGRLRASLEEHRAILD 105
PRK09764 PRK09764
GntR family transcriptional regulator;
8-76 6.65e-09

GntR family transcriptional regulator;


Pssm-ID: 182065 [Multi-domain]  Cd Length: 240  Bit Score: 54.83  E-value: 6.65e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 817530858   8 NRRLYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVRQ 76
Cdd:PRK09764   3 HKPLYRQIADRIREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESIQGSGTYVKE 71
PRK09990 PRK09990
DNA-binding transcriptional regulator GlcC; Provisional
 4-192 2.50e-08

DNA-binding transcriptional regulator GlcC; Provisional


Pssm-ID: 182186 [Multi-domain]  Cd Length: 251  Bit Score: 53.23  E-value: 2.50e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858   4 QPIQNRRLYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVRQpeagata 83
Cdd:PRK09990   1 MKDERRPIADVVAERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGSFVAR------- 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 817530858  84 aalpvraaasgLPDVPDrkLAPLgivevdpelgiaLDLDTEIPP--FALLQARRLIEPEAAALAAKHGSQTQIAAI---H 158
Cdd:PRK09990  74 -----------LNRVQD--ASPL------------MHLFSSQPRtlYDLLEVRALLEGESARLAALRGTQADFVLItrrY 128

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 817530858 159 AAFLRNQEDNRSGSL-THPG-DRLFHIRIAEASDNP 192
Cdd:PRK09990 129 EEMLAAHENNKEIDPiEHARlDHAFHLAICEASHNP 164
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
26-55 2.85e-08

fatty acid metabolism transcriptional regulator FadR;


Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 52.95  E-value: 2.85e-08
                         10        20        30
                 ....*....|....*....|....*....|
gi 817530858  26 GDFPPGSYLPPERELAEQFGVSRTSVREAL 55
Cdd:PRK04984  23 NRFPPGSILPAERELSELIGVTRTTLREVL 52
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
1-75 3.95e-08

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


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 50.56  E-value: 3.95e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 817530858   1 MSIQPIQNRRLYQQIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVR 75
Cdd:COG1725    1 IRIDFDSGVPIYEQIADQIKEAIASGELKPGDRLPSVRELAAELGVNPNTVAKAYRELEDEGLIETRRGKGTFVA 75
PRK15481 PRK15481
transcriptional regulatory protein PtsJ; Provisional
 14-81 4.69e-06

transcriptional regulatory protein PtsJ; Provisional


Pssm-ID: 185378 [Multi-domain]  Cd Length: 431  Bit Score: 47.35  E-value: 4.69e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 817530858  14 QIADKLGALIEAGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKVR-QPEAGA 81
Cdd:PRK15481   9 EIFDSIRQLIQAGRLRPGDSLPPVRELASELGVNRNTVAAAYKRLVTAGLAQSQGRNGTVIRgSPSPVA 77
PRK10079 PRK10079
phosphonate metabolism transcriptional regulator PhnF; Provisional
 1-74 7.70e-04

phosphonate metabolism transcriptional regulator PhnF; Provisional


Pssm-ID: 182227 [Multi-domain]  Cd Length: 241  Bit Score: 39.76  E-value: 7.70e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 817530858   1 MSIQPIQNRRLYQQIADKLGALIEaGDFPPGSYLPPERELAEQFGVSRTSVREALIALEVSGRVSVRVGDGVKV 74
Cdd:PRK10079   3 LSRHPTSYPTRYQEIAAKLEQELR-QHYRCGDYLPAEQQLAARYEVNRHTLRRAIDQLVEKGWVQRRQGVGVLV 75
 
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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