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Conserved domains on  [gi|489612092|ref|WP_003516533|]
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MULTISPECIES: FadR/GntR family transcriptional regulator [Rhizobium/Agrobacterium group]

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];
10-236 1.57e-61

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


:

Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 192.46  E-value: 1.57e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  10 RNDHLPGRIAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPRQRLSIRIE 89
Cdd:COG2186    4 RRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDPL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  90 RSRL-NDPENFRDLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMRTTDDWSTEGVAADLDFHRILAEATQNEYFLM 168
Cdd:COG2186   84 ALLLaLDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAADDGEAFAEADLAFHRAIAEASGNPLLAL 163

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489612092 169 FLGFIAERISSAINIAFSRAifgEILEVTIAEHVAIFEAVERADATAAKDAMRKHLLGAASRVNLELD 236
Cdd:COG2186  164 LLESLRELLRRSVRLTLRSP---EARERSLAEHRAILDAIRAGDPEAARAAMRAHLEAVRERLREALA 228
 
Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
10-236 1.57e-61

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 192.46  E-value: 1.57e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  10 RNDHLPGRIAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPRQRLSIRIE 89
Cdd:COG2186    4 RRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDPL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  90 RSRL-NDPENFRDLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMRTTDDWSTEGVAADLDFHRILAEATQNEYFLM 168
Cdd:COG2186   84 ALLLaLDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAADDGEAFAEADLAFHRAIAEASGNPLLAL 163

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489612092 169 FLGFIAERISSAINIAFSRAifgEILEVTIAEHVAIFEAVERADATAAKDAMRKHLLGAASRVNLELD 236
Cdd:COG2186  164 LLESLRELLRRSVRLTLRSP---EARERSLAEHRAILDAIRAGDPEAARAAMRAHLEAVRERLREALA 228
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 20-224 9.45e-28

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 105.87  E-value: 9.45e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  20 AEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPRQRLSIR-IERSRL----N 94
Cdd:PRK03837  20 ERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQISHGERARVSRPSADTIIGqLSGMAKdflsQ 99

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  95 DPENFRDLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMRTTDDWSTEGVAADLDFHRILAEATQNEYFLmflgfia 174
Cdd:PRK03837 100 SPDGLAHLKQARLFFESSLARYAAEHATDEQIALLRKALERNSQSLGDNAAFIRSDMEFHRVIAEIPGNPIFM------- 172

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489612092 175 erissainiAFSRAIFGEILE-------------VTIAEHVAIFEAVERADATAAKDAMRKHL 224
Cdd:PRK03837 173 ---------AIHEALLDWLIEarpevvilhghenVTLQEHIAIVDAIRAHDPDEADRALQSHL 226
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 17-78 1.25e-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: 84.81  E-value: 1.25e-21
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 489612092  17 RIAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVT 78
Cdd:cd07377    5 QIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 101-224 1.90e-20

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: 83.56  E-value: 1.90e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092   101 DLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMR---TTDDWSTEGVAADLDFHRILAEATQNEYFLMFLGFIAERI 177
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEaaaAAGDDLEEFAELDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*..
gi 489612092   178 SSAiniafsRAIFGEILEVTIAEHVAIFEAVERADATAAKDAMRKHL 224
Cdd:smart00895  81 RRL------RRLSLEAARRALDEHRAILDAIRARDAEAARAAMREHL 121
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 101-221 4.74e-18

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: 77.02  E-value: 4.74e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  101 DLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMRTTDDW--STEGVAADLDFHRILAEATQNEYFLMFLGFIAERIS 178
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAgdLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 489612092  179 SAINIAFSRAifgEILEVTIAEHVAIFEAVERADATAAKDAMR 221
Cdd:pfam07729  81 RLRRLLLSSP---GRLRASLEEHRAILDAIRARDPEAARAAMR 120
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 18-81 1.82e-14

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: 70.20  E-value: 1.82e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489612092   18 IAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPR 81
Cdd:TIGR02325  13 IADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVAARR 76
 
Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
10-236 1.57e-61

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 192.46  E-value: 1.57e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  10 RNDHLPGRIAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPRQRLSIRIE 89
Cdd:COG2186    4 RRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDPL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  90 RSRL-NDPENFRDLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMRTTDDWSTEGVAADLDFHRILAEATQNEYFLM 168
Cdd:COG2186   84 ALLLaLDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAADDGEAFAEADLAFHRAIAEASGNPLLAL 163

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489612092 169 FLGFIAERISSAINIAFSRAifgEILEVTIAEHVAIFEAVERADATAAKDAMRKHLLGAASRVNLELD 236
Cdd:COG2186  164 LLESLRELLRRSVRLTLRSP---EARERSLAEHRAILDAIRAGDPEAARAAMRAHLEAVRERLREALA 228
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
14-231 7.62e-38

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 131.58  E-value: 7.62e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  14 LPGRIAAEIAREINDSKLGPGDRLpTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPrqrlsiriersrl 93
Cdd:COG1802   12 LAEQVYEALREAILSGELPPGERL-SEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPL------------- 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  94 nDPENFRDLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMRT---TDDWsTEGVAADLDFHRILAEATQNEYFLMFL 170
Cdd:COG1802   78 -SPEEIRELYEVRAALEGLAARLAAERATPADLARLRALLEELEAaaaAGDV-AAYLELDREFHRALVEAAGNPRLAELL 155

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489612092 171 GFIAERISSAINIAFSRAifgEILEVTIAEHVAIFEAVERADATAAKDAMRKHLLGAASRV 231
Cdd:COG1802  156 RRLRARLRRYRRLSLRSP---GRLEESLAEHRAILDALEAGDAEAAAAALRAHLERARERL 213
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 20-224 9.45e-28

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 105.87  E-value: 9.45e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  20 AEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPRQRLSIR-IERSRL----N 94
Cdd:PRK03837  20 ERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQISHGERARVSRPSADTIIGqLSGMAKdflsQ 99

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  95 DPENFRDLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMRTTDDWSTEGVAADLDFHRILAEATQNEYFLmflgfia 174
Cdd:PRK03837 100 SPDGLAHLKQARLFFESSLARYAAEHATDEQIALLRKALERNSQSLGDNAAFIRSDMEFHRVIAEIPGNPIFM------- 172

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489612092 175 erissainiAFSRAIFGEILE-------------VTIAEHVAIFEAVERADATAAKDAMRKHL 224
Cdd:PRK03837 173 ---------AIHEALLDWLIEarpevvilhghenVTLQEHIAIVDAIRAHDPDEADRALQSHL 226
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 17-224 1.56e-24

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 97.53  E-value: 1.56e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  17 RIAAEIARE----INDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFV-----TDPRQRLSIR 87
Cdd:PRK10421   2 RLSDEVADRvralIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIrwrheTWSEQNIVQP 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  88 IERSRLNDPENFRDLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMRTTDdwSTEGVAADLDFHRILAEATQNEYFL 167
Cdd:PRK10421  82 LKTLMADDPDYSFDILEARHAIEASTAWHAAMRATPGDKEKIQLCFEATLSED--PDLASQADVRFHLAIAEASHNVVLL 159

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092 168 MFLGFIAERISSaiNIAFSRA---IFGEILEVTIAEHVAIFEAVERADATAAKDAMRKHL 224
Cdd:PRK10421 160 QTMRGFFDVLQS--SVKQSRQrmyLVPPVFSQLTEQHQAVMDAILAGDAEGARKAMMAHL 217
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 17-78 1.25e-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: 84.81  E-value: 1.25e-21
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 489612092  17 RIAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVT 78
Cdd:cd07377    5 QIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
17-86 4.14e-21

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 88.00  E-value: 4.14e-21
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  17 RIAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPRQRLSI 86
Cdd:COG2188    9 QIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEPKIEYPL 78
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 101-224 1.90e-20

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: 83.56  E-value: 1.90e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092   101 DLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMR---TTDDWSTEGVAADLDFHRILAEATQNEYFLMFLGFIAERI 177
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEaaaAAGDDLEEFAELDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*..
gi 489612092   178 SSAiniafsRAIFGEILEVTIAEHVAIFEAVERADATAAKDAMRKHL 224
Cdd:smart00895  81 RRL------RRLSLEAARRALDEHRAILDAIRARDAEAARAAMREHL 121
PRK10225 PRK10225
Uxu operon transcriptional regulator;
18-231 1.16e-19

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 84.69  E-value: 1.16e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  18 IAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPRQRLSIRIERSRL-NDP 96
Cdd:PRK10225  14 VGAMIRDLIIKTPYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAGIYVLDSSGSHNTDSPDANVcNDA 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  97 ENFrDLFQLRMPMEIEAAGLAALHRNPQQLARLAAALE----KMRTTDDWSTEgvAADLDFHRILAEATQNEYFL-MFLG 171
Cdd:PRK10225  94 GPF-ELLQARQLLESNIAEFAALQATREDIVKMRQALQleerELASSAPGSSE--SGDMQFHLAIAEATHNSMLVeLFRQ 170

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 489612092 172 FIAERISSAINIAFSRAIfGEILEVT--IAEHVAIFEAVERADATAAKDAMRKHLLGAASRV 231
Cdd:PRK10225 171 SWQWRENNPMWIQLHSHL-DDSLYRKewLGDHKQILAALIKKDARAAKLAMWQHLENVKQRL 231
PRK11523 PRK11523
transcriptional regulator ExuR;
17-224 4.37e-19

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 82.97  E-value: 4.37e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  17 RIAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPRQRLSIRIERSRLNDP 96
Cdd:PRK11523  12 QLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKGSGIHVVSNQPRHQQAADNNMEFAN 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  97 ENFRDLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMRTTD-----DWstegvaaDLDFHRILAEATQNEYflmfLG 171
Cdd:PRK11523  92 YGPFELLQARQLIESNIAEFAATQVTKQDIMKLMAIQEQARGEDcfrdsEW-------DLQFHVQVALATQNSA----LA 160

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 489612092 172 FIAERI-SSAINIAFSRAIFGEILEVTIA----EHVAIFEAVERADATAAKDAMRKHL 224
Cdd:PRK11523 161 AIVEKMwTQRSHNPYWKKLHEHIDDRTVDnwcdDHDQILKALIRKDPHAAKLAMWQHL 218
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
18-224 1.77e-18

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 81.61  E-value: 1.77e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  18 IAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDP-RQRLSIRIERSRLNDP 96
Cdd:PRK09464  15 IEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSlWQSFSDPLVELLSDHP 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  97 ENFRDLFQLRMPMEIEAAGLAALHRNPQQLARLAA---ALEKMRTTDDWSTEgVAADLDFHRILAEATQNEYFLMFL--- 170
Cdd:PRK09464  95 ESQFDLLETRHALEGIAAYYAALRGTDEDFERIREchhAIELAQQSGDLDAE-ANAVMQYQIAVTEAAHNVVLLHLLrcm 173

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 489612092 171 -GFIAERISSAINIAFSRAifgEILEvTIAEHVA-IFEAVERADATAAKDAMRKHL 224
Cdd:PRK09464 174 ePMLEQNVRQNFELLYRRR---EMLP-KVSSHRArIFEAIVAGKPEKAREASHRHL 225
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 101-221 4.74e-18

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: 77.02  E-value: 4.74e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  101 DLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMRTTDDW--STEGVAADLDFHRILAEATQNEYFLMFLGFIAERIS 178
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAgdLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 489612092  179 SAINIAFSRAifgEILEVTIAEHVAIFEAVERADATAAKDAMR 221
Cdd:pfam07729  81 RLRRLLLSSP---GRLRASLEEHRAILDAIRARDPEAARAAMR 120
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 7-106 6.23e-15

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: 73.32  E-value: 6.23e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092   7 QIHRNDHLP--GRIAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPRQRL 84
Cdd:COG1167    4 RLDRDSSGPlyLQLADALREAILSGRLPPGDRLPSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSGTFVAARLPAP 83

                         90       100
                 ....*....|....*....|..
gi 489612092  85 SIRIERSRLNDPENFRDLFQLR 106
Cdd:COG1167   84 APAPRAAAAVAAPALRRLLEAA 105
PRK09990 PRK09990
DNA-binding transcriptional regulator GlcC; Provisional
 18-163 1.26e-14

DNA-binding transcriptional regulator GlcC; Provisional


Pssm-ID: 182186 [Multi-domain]  Cd Length: 251  Bit Score: 70.95  E-value: 1.26e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  18 IAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDprqrLSIRIERSRL---- 93
Cdd:PRK09990  12 VAERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGSFVAR----LNRVQDASPLmhlf 87

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489612092  94 -NDPENFRDLFQLRMPMEIEAAGLAALHRNPQQLARLAAALEKMRTTDDWSTEGVAA-----DLDFHRILAEATQN 163
Cdd:PRK09990  88 sSQPRTLYDLLEVRALLEGESARLAALRGTQADFVLITRRYEEMLAAHENNKEIDPIeharlDHAFHLAICEASHN 163
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 18-81 1.82e-14

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: 70.20  E-value: 1.82e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489612092   18 IAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPR 81
Cdd:TIGR02325  13 IADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVAARR 76
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 17-77 4.17e-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: 64.94  E-value: 4.17e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489612092   17 RIAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFV 77
Cdd:pfam00392   4 QVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
18-77 1.09e-13

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 63.75  E-value: 1.09e-13
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092    18 IAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFV 77
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
18-95 1.42e-13

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


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 64.81  E-value: 1.42e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489612092  18 IAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPRQRLSIRIERSRLND 95
Cdd:COG1725   15 IADQIKEAIASGELKPGDRLPSVRELAAELGVNPNTVAKAYRELEDEGLIETRRGKGTFVAEDARELLEERREEFLEE 92
PRK09764 PRK09764
GntR family transcriptional regulator;
17-86 9.46e-11

GntR family transcriptional regulator;


Pssm-ID: 182065 [Multi-domain]  Cd Length: 240  Bit Score: 59.84  E-value: 9.46e-11
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  17 RIAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPRQRLSI 86
Cdd:PRK09764   9 QIADRIREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESIQGSGTYVKEERVNYDI 78
PRK11402 PRK11402
transcriptional regulator PhoB;
22-81 1.81e-08

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 53.30  E-value: 1.81e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  22 IAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPR 81
Cdd:PRK11402  18 LLDDIAQGVYQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQSQK 77
PRK14999 PRK14999
histidine utilization repressor; Provisional
 17-81 4.48e-07

histidine utilization repressor; Provisional


Pssm-ID: 184961 [Multi-domain]  Cd Length: 241  Bit Score: 49.16  E-value: 4.48e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 489612092  17 RIAAEIAREINDSKLGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPR 81
Cdd:PRK14999  16 TVKQDICKKIAGGVWQPHDRIPSEAELVAQYGFSRMTINRALRELTDEGWLVRLQGVGTFVAEPK 80
PRK10079 PRK10079
phosphonate metabolism transcriptional regulator PhnF; Provisional
 18-77 9.86e-07

phosphonate metabolism transcriptional regulator PhnF; Provisional


Pssm-ID: 182227 [Multi-domain]  Cd Length: 241  Bit Score: 48.23  E-value: 9.86e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  18 IAAEIAREINDSKLGpGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFV 77
Cdd:PRK10079  17 IAAKLEQELRQHYRC-GDYLPAEQQLAARYEVNRHTLRRAIDQLVEKGWVQRRQGVGVLV 75
Rrf2 pfam02082
Iron-dependent Transcriptional regulator; Several proteins in this family form iron-sulfur ...
 31-74 2.58e-03

Iron-dependent Transcriptional regulator; Several proteins in this family form iron-sulfur clusters enabling iron dependent DNA transcription regulation. The iron binding is mediated by three conserved cysteine residues. Members of this family can also bind O-acetyl-L-serine, [Fe-S] and nitric oxide (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 396591 [Multi-domain]  Cd Length: 131  Bit Score: 36.76  E-value: 2.58e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 489612092   31 LGPGDRLPTEHVLAKTFGVSRSVIREAIAQLRNEGFVETRQGVG 74
Cdd:pfam02082  17 LHPGGEPVTSEEIAERQNISPVYLEKILAKLRKAGLVESVRGAG 60
PRK11534 PRK11534
DNA-binding transcriptional regulator CsiR; Provisional
 33-225 3.09e-03

DNA-binding transcriptional regulator CsiR; Provisional


Pssm-ID: 183181 [Multi-domain]  Cd Length: 224  Bit Score: 37.57  E-value: 3.09e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092  33 PGDRLPTEHvLAKTFGVSRSVIREAIAQLRNEGFVETRQGVGAFVTDPRQRLSIRIERSRLNDPENFRDLFQLRMPMEIE 112
Cdd:PRK11534  27 PDEKLRMSL-LTSRYALGVGPLREALSQLVAERLVTVVNQKGYRVASMSEQELLDIFDARANMEAMLVSLAIARGGDEWE 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489612092 113 AAGLAALHrnpqQLARLAAALEKMRTTDDWSTEGVAadldFHRILAEATQNEYFLMFLGFIAERISSAINIAFSRAIFG- 191
Cdd:PRK11534 106 ADVLAKAH----LLSKLEACDASEKMLDEWDLRHQA----FHTAIVAGCGSHYLLQMRERLFDLAARYRFIWLRRTVLSv 177

                        170       180       190
                 ....*....|....*....|....*....|....
gi 489612092 192 EILEVTIAEHVAIFEAVERADATAAKDAMRKHLL 225
Cdd:PRK11534 178 EMLEDKHDQHQTLTAAILARDTARASELMRQHLL 211
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 43-74 6.24e-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: 33.95  E-value: 6.24e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 489612092   43 LAKTFGVSRSVIREAIAQLRNEGF-VETRQGVG 74
Cdd:pfam08279  19 LAEKLGVSRRTIRRDIKILEELGVpIEAEPGRG 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.
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