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Conserved domains on  [gi|446253922|ref|WP_000331777|]
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MULTISPECIES: pyruvate dehydrogenase complex transcriptional repressor PdhR [Enterobacteriaceae]

Protein Classification

pyruvate dehydrogenase complex transcriptional repressor PdhR( domain architecture ID 11484191)

pyruvate dehydrogenase complex transcriptional repressor PdhR regulates genes involved in the pyruvate dehydrogenase complex

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
1-234 2.81e-163

pyruvate dehydrogenase complex transcriptional repressor PdhR;


:

Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 452.17  E-value: 2.81e-163
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922   1 MAYSKIRQPKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQ 80
Cdd:PRK09464   1 MAYSKIRQPKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  81 SFSDPLVELLSDHPESQYDLLETRHALEGIAAYYAALRSTDEDKERIRELHHAIELAQQSGDLDAESNAVLQYQIAVTEA 160
Cdd:PRK09464  81 SFSDPLVELLSDHPESQFDLLETRHALEGIAAYYAALRGTDEDFERIRECHHAIELAQQSGDLDAEANAVMQYQIAVTEA 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446253922 161 AHNVVLLHLLRCMEPMLAQNVRQNFELLYSRREMLPLVSSHRTRIFEAIMVGKPEEAREASHRHLAFIEEILLD 234
Cdd:PRK09464 161 AHNVVLLHLLRCMEPMLEQNVRQNFELLYRRREMLPKVSSHRARIFEAIVAGKPEKAREASHRHLAFIEEILLD 234
 
Name Accession Description Interval E-value
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
1-234 2.81e-163

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 452.17  E-value: 2.81e-163
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922   1 MAYSKIRQPKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQ 80
Cdd:PRK09464   1 MAYSKIRQPKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  81 SFSDPLVELLSDHPESQYDLLETRHALEGIAAYYAALRSTDEDKERIRELHHAIELAQQSGDLDAESNAVLQYQIAVTEA 160
Cdd:PRK09464  81 SFSDPLVELLSDHPESQFDLLETRHALEGIAAYYAALRGTDEDFERIRECHHAIELAQQSGDLDAEANAVMQYQIAVTEA 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446253922 161 AHNVVLLHLLRCMEPMLAQNVRQNFELLYSRREMLPLVSSHRTRIFEAIMVGKPEEAREASHRHLAFIEEILLD 234
Cdd:PRK09464 161 AHNVVLLHLLRCMEPMLEQNVRQNFELLYRRREMLPKVSSHRARIFEAIVAGKPEKAREASHRHLAFIEEILLD 234
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
4-234 5.15e-65

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 202.09  E-value: 5.15e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922   4 SKIRQPKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQSFS 83
Cdd:COG2186    1 KPIRRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  84 DPLVELLSDHPESQYDLLETRHALEGIAAYYAALRSTDEDKERIRELHHAIELAQqsGDLDAESNAVLQYQIAVTEAAHN 163
Cdd:COG2186   81 DPLALLLALDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAA--DDGEAFAEADLAFHRAIAEASGN 158

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446253922 164 VVLLHLLRCMEPMLAQNVRQNFEllySRREMLPLVSSHRtRIFEAIMVGKPEEAREASHRHLAFIEEILLD 234
Cdd:COG2186  159 PLLALLLESLRELLRRSVRLTLR---SPEARERSLAEHR-AILDAIRAGDPEAARAAMRAHLEAVRERLRE 225
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 11-74 1.50e-23

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: 89.98  E-value: 1.50e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446253922   11 LSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFV 74
Cdd:pfam00392   1 LYEQVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 10-74 2.18e-23

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: 89.81  E-value: 2.18e-23
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446253922  10 KLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFV 74
Cdd:cd07377    1 PLYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFV 65
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
15-74 9.14e-22

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 85.32  E-value: 9.14e-22
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922    15 IEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFV 74
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 15-86 4.41e-11

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: 60.95  E-value: 4.41e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446253922   15 IEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSslwQSFSDPL 86
Cdd:TIGR02325  13 IADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVAA---RRIDYPL 81
 
Name Accession Description Interval E-value
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
1-234 2.81e-163

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 452.17  E-value: 2.81e-163
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922   1 MAYSKIRQPKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQ 80
Cdd:PRK09464   1 MAYSKIRQPKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  81 SFSDPLVELLSDHPESQYDLLETRHALEGIAAYYAALRSTDEDKERIRELHHAIELAQQSGDLDAESNAVLQYQIAVTEA 160
Cdd:PRK09464  81 SFSDPLVELLSDHPESQFDLLETRHALEGIAAYYAALRGTDEDFERIRECHHAIELAQQSGDLDAEANAVMQYQIAVTEA 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446253922 161 AHNVVLLHLLRCMEPMLAQNVRQNFELLYSRREMLPLVSSHRTRIFEAIMVGKPEEAREASHRHLAFIEEILLD 234
Cdd:PRK09464 161 AHNVVLLHLLRCMEPMLEQNVRQNFELLYRRREMLPKVSSHRARIFEAIVAGKPEKAREASHRHLAFIEEILLD 234
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
4-234 5.15e-65

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 202.09  E-value: 5.15e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922   4 SKIRQPKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQSFS 83
Cdd:COG2186    1 KPIRRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  84 DPLVELLSDHPESQYDLLETRHALEGIAAYYAALRSTDEDKERIRELHHAIELAQqsGDLDAESNAVLQYQIAVTEAAHN 163
Cdd:COG2186   81 DPLALLLALDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAA--DDGEAFAEADLAFHRAIAEASGN 158

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446253922 164 VVLLHLLRCMEPMLAQNVRQNFEllySRREMLPLVSSHRtRIFEAIMVGKPEEAREASHRHLAFIEEILLD 234
Cdd:COG2186  159 PLLALLLESLRELLRRSVRLTLR---SPEARERSLAEHR-AILDAIRAGDPEAARAAMRAHLEAVRERLRE 225
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 10-230 1.55e-57

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 183.81  E-value: 1.55e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  10 KLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQS--SLW--QSFSDP 85
Cdd:PRK10421   2 RLSDEVADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRWrhETWseQNIVQP 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  86 LVELLSDHPESQYDLLETRHALEGIAAYYAALRSTDEDKERIRELHHAIelaqQSGDLDAESNAVLQYQIAVTEAAHNVV 165
Cdd:PRK10421  82 LKTLMADDPDYSFDILEARHAIEASTAWHAAMRATPGDKEKIQLCFEAT----LSEDPDLASQADVRFHLAIAEASHNVV 157

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446253922 166 LLHLLRCMEPMLAQNVRQNFELLYSRREMLPLVSSHRTRIFEAIMVGKPEEAREASHRHLAFIEE 230
Cdd:PRK10421 158 LLQTMRGFFDVLQSSVKQSRQRMYLVPPVFSQLTEQHQAVMDAILAGDAEGARKAMMAHLSFVHT 222
PRK09990 PRK09990
DNA-binding transcriptional regulator GlcC; Provisional
 7-234 2.41e-33

DNA-binding transcriptional regulator GlcC; Provisional


Pssm-ID: 182186 [Multi-domain]  Cd Length: 251  Bit Score: 121.41  E-value: 2.41e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922   7 RQPKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQSFSDPL 86
Cdd:PRK09990   4 ERRPIADVVAERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGSFVARLNRVQDASPL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  87 VELLSDHPESQYDLLETRHALEGIAAYYAALRSTDEDKERIRELHHAIELAQQSG-DLDAESNAVLQY--QIAVTEAAHN 163
Cdd:PRK09990  84 MHLFSSQPRTLYDLLEVRALLEGESARLAALRGTQADFVLITRRYEEMLAAHENNkEIDPIEHARLDHafHLAICEASHN 163

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446253922 164 VVLLHLLRCMEPMLAQNVRQNFELLYSRREMLPLVSSHRTRIFEAIMVGKPEEAREASHRHLAFIEEILLD 234
Cdd:PRK09990 164 PVLVHTLQSLTDLMLSSVFASVNNLYHRPQQKKQIDRQHARLYNAVLQRLPEQAQRAARDHIRTVRDNLRE 234
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
4-234 1.15e-30

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 113.48  E-value: 1.15e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922   4 SKIRQPKLSDVIEQQLEFLILEGTLRPGEKLPpERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVqsslwQSFS 83
Cdd:COG1802    5 SPLRRESLAEQVYEALREAILSGELPPGERLS-EAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARV-----APLS 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  84 dplvellsdhPESQYDLLETRHALEGIAAYYAALRSTDEDKERIRELHHAIELAQQSGDLDAESNAVLQYQIAVTEAAHN 163
Cdd:COG1802   79 ----------PEEIRELYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEAAGN 148

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446253922 164 VVLLHLLRcmepMLAQNVRQNFELLYSRREMLPLVSSHRTRIFEAIMVGKPEEAREASHRHLAFIEEILLD 234
Cdd:COG1802  149 PRLAELLR----RLRARLRRYRRLSLRSPGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERARERLLE 215
PRK10225 PRK10225
Uxu operon transcriptional regulator;
22-234 5.92e-25

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 99.32  E-value: 5.92e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  22 LILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFV-QSSLWQSFSDPLVELLSDhpESQYDL 100
Cdd:PRK10225  21 LIIKTPYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAGIYVlDSSGSHNTDSPDANVCND--AGPFEL 98

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922 101 LETRHALEGIAAYYAALRSTDEDkerIRELHHAIELAQQ---SGDLDAESNAVLQYQIAVTEAAHNVVLLHLLRCM---- 173
Cdd:PRK10225  99 LQARQLLESNIAEFAALQATRED---IVKMRQALQLEERelaSSAPGSSESGDMQFHLAIAEATHNSMLVELFRQSwqwr 175

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446253922 174 --EPMLAQNVRQNFELLYsRREMLplvSSHRtRIFEAIMVGKPEEAREASHRHLAFIEEILLD 234
Cdd:PRK10225 176 enNPMWIQLHSHLDDSLY-RKEWL---GDHK-QILAALIKKDARAAKLAMWQHLENVKQRLLE 233
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 11-74 1.50e-23

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: 89.98  E-value: 1.50e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446253922   11 LSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFV 74
Cdd:pfam00392   1 LYEQVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 10-74 2.18e-23

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: 89.81  E-value: 2.18e-23
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446253922  10 KLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFV 74
Cdd:cd07377    1 PLYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFV 65
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 6-225 1.39e-22

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 92.78  E-value: 1.39e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922   6 IRQPKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQ----SSLWQS 81
Cdd:PRK03837   9 IARKKLSEEVEERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQISHGERARVSrpsaDTIIGQ 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  82 FSDPLVELLSDHPESQYDLLETRHALEGIAAYYAALRSTDEDKERIRElhhAIELAQQS-GDLDAESNAVLQYQIAVTEA 160
Cdd:PRK03837  89 LSGMAKDFLSQSPDGLAHLKQARLFFESSLARYAAEHATDEQIALLRK---ALERNSQSlGDNAAFIRSDMEFHRVIAEI 165

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446253922 161 AHNVVLLHLLrcmEPMLAQNVRQNFELL-YSRREMLPLVssHRTRIFEAIMVGKPEEAREASHRHL 225
Cdd:PRK03837 166 PGNPIFMAIH---EALLDWLIEARPEVViLHGHENVTLQ--EHIAIVDAIRAHDPDEADRALQSHL 226
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
15-74 9.14e-22

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 85.32  E-value: 9.14e-22
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922    15 IEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFV 74
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
15-128 4.95e-20

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 85.68  E-value: 4.95e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  15 IEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQS-------SLWQSFSDpLV 87
Cdd:COG2188   10 IADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEpkieyplSRLTSFTE-EL 88

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 446253922  88 ELLSDHPESQYDLLETRHALEGIAayyAALRSTDEDK----ERIR 128
Cdd:COG2188   89 RARGREPSTRVLSAERVPADEEVA---EALGLPPGAPvlriERLR 130
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 15-95 3.47e-16

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: 77.18  E-value: 3.47e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  15 IEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQSFSDPLVELLSDHP 94
Cdd:COG1167   17 LADALREAILSGRLPPGDRLPSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSGTFVAARLPAPAPAPRAAAAVAAP 96


                 .
gi 446253922  95 E 95
Cdd:COG1167   97 A 97
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 99-226 1.21e-14

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: 68.54  E-value: 1.21e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922    99 DLLETRHALEGIAAYYAALRSTDEDKERIRELHHAIELAQQSGDLDAE-SNAVLQYQIAVTEAAHNVVLLHLLRcmepML 177
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAGDDLEEfAELDREFHRALAEAAGNPVLLELLE----SL 76

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*....
gi 446253922   178 AQNVRQNFELlySRREMLPLVSSHRtRIFEAIMVGKPEEAREASHRHLA 226
Cdd:smart00895  77 RARLRRLRRL--SLEAARRALDEHR-AILDAIRARDAEAARAAMREHLE 122
PRK11402 PRK11402
transcriptional regulator PhoB;
3-76 4.97e-13

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 66.40  E-value: 4.97e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446253922   3 YSKIRQPKLSDvieqqleflILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQS 76
Cdd:PRK11402  11 YATVRQRLLDD---------IAQGVYQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQS 75
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
15-130 1.66e-12

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


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 62.12  E-value: 1.66e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  15 IEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVqsslwqsfsdplvellSDHP 94
Cdd:COG1725   15 IADQIKEAIASGELKPGDRLPSVRELAAELGVNPNTVAKAYRELEDEGLIETRRGKGTFV----------------AEDA 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 446253922  95 ESQYDLLETRHALEGIAAYYAALRSTDEDKERIREL 130
Cdd:COG1725   79 RELLEERREEFLEEALRELVAEARRLGLSLEELLEL 114
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 99-223 6.11e-12

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: 60.85  E-value: 6.11e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922   99 DLLETRHALEGIAAYYAALRSTDEDKERIRELHHAIELAQQSGDLDAESNAVLQYQIAVTEAAHNVVLLHLLRCMEPMLA 178
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 446253922  179 QNVRqnfeLLYSRREMLPLVSSHRTRIFEAIMVGKPEEAREASHR 223
Cdd:pfam07729  81 RLRR----LLLSSPGRLRASLEEHRAILDAIRARDPEAARAAMRR 121
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 15-86 4.41e-11

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: 60.95  E-value: 4.41e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446253922   15 IEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSslwQSFSDPL 86
Cdd:TIGR02325  13 IADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVAA---RRIDYPL 81
PRK11523 PRK11523
transcriptional regulator ExuR;
23-173 9.91e-10

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 57.16  E-value: 9.91e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  23 ILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSS--LWQSFSDPLVELLSDHPesqYDL 100
Cdd:PRK11523  21 IEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKGSGIHVVSNqpRHQQAADNNMEFANYGP---FEL 97

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446253922 101 LETRHALEGIAAYYAALRSTDEDkerIRELHHAIELAQQSgDLDAESNAVLQYQIAVTEAAHNVVLLHLLRCM 173
Cdd:PRK11523  98 LQARQLIESNIAEFAATQVTKQD---IMKLMAIQEQARGE-DCFRDSEWDLQFHVQVALATQNSALAAIVEKM 166
PRK15481 PRK15481
transcriptional regulatory protein PtsJ; Provisional
 22-96 3.66e-07

transcriptional regulatory protein PtsJ; Provisional


Pssm-ID: 185378 [Multi-domain]  Cd Length: 431  Bit Score: 50.43  E-value: 3.66e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446253922  22 LILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSslwqsfSDPLVELLSDHPES 96
Cdd:PRK15481  17 LIQAGRLRPGDSLPPVRELASELGVNRNTVAAAYKRLVTAGLAQSQGRNGTVIRG------SPSPVALEGGDPGT 85
PRK14999 PRK14999
histidine utilization repressor; Provisional
 15-112 6.79e-07

histidine utilization repressor; Provisional


Pssm-ID: 184961 [Multi-domain]  Cd Length: 241  Bit Score: 48.78  E-value: 6.79e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  15 IEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQsslwqsfsdplvellsdHP 94
Cdd:PRK14999  17 VKQDICKKIAGGVWQPHDRIPSEAELVAQYGFSRMTINRALRELTDEGWLVRLQGVGTFVA-----------------EP 79

                         90
                 ....*....|....*...
gi 446253922  95 ESQYDLLETRHALEGIAA 112
Cdd:PRK14999  80 KGQSALFEVRSIAEEIAA 97
PRK09764 PRK09764
GntR family transcriptional regulator;
10-75 8.75e-07

GntR family transcriptional regulator;


Pssm-ID: 182065 [Multi-domain]  Cd Length: 240  Bit Score: 48.67  E-value: 8.75e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446253922  10 KLSDVIEQQleflILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQ 75
Cdd:PRK09764   9 QIADRIREQ----IARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESIQGSGTYVK 70
PRK10079 PRK10079
phosphonate metabolism transcriptional regulator PhnF; Provisional
 24-112 9.22e-07

phosphonate metabolism transcriptional regulator PhnF; Provisional


Pssm-ID: 182227 [Multi-domain]  Cd Length: 241  Bit Score: 48.62  E-value: 9.22e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446253922  24 LEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQ-------SFSDPLVELLSdHPES 96
Cdd:PRK10079  25 LRQHYRCGDYLPAEQQLAARYEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPYDyplnaqaRFSQNLLDQGS-HPTS 103

                         90
                 ....*....|....*.
gi 446253922  97 QYDLLETRHALEGIAA 112
Cdd:PRK10079 104 EKLLSVLRPASGHVAD 119
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
23-58 3.80e-04

fatty acid metabolism transcriptional regulator FadR;


Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 40.62  E-value: 3.80e-04
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 446253922  23 ILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRL 58
Cdd:PRK04984  20 IWNNRFPPGSILPAERELSELIGVTRTTLREVLQRL 55
MntR COG1321
Mn-dependent transcriptional regulator MntR, DtxR family [Transcription];
39-71 1.04e-03

Mn-dependent transcriptional regulator MntR, DtxR family [Transcription];


Pssm-ID: 440932 [Multi-domain]  Cd Length: 135  Bit Score: 38.26  E-value: 1.04e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 446253922  39 ELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGG 71
Cdd:COG1321   29 DIAERLGVSPPSVTEMLKKLEEKGLVEYEPYGG 61
 
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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