NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|489990483|ref|WP_003893540|]
View 

FadR/GntR family transcriptional regulator [Mycolicibacterium smegmatis]

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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
15-241 1.96e-42

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


:

Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 143.92  E-value: 1.96e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  15 TRIADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFVLRKPTTAVGTGLQM 94
Cdd:COG2186    6 RSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDPLAL 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  95 MIELEPDSIGEAVDMRHLLEMA----AVERITAKptlELDSIEEALERLRAAKGSAAEWIAADTNFHVTFIRLAENRFLT 170
Cdd:COG2186   86 LLALDDASLRDLLEARLALEPEaarlAAERATDE---DLARLEAALAEMEAAADDGEAFAEADLAFHRAIAEASGNPLLA 162

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489990483 171 SVFESVHDAVVARAYQSWIVANEPPPWLagkefaaqiALHEPIVAALRANDGAQLVAALTRHQKALEAHMR 241
Cdd:COG2186  163 LLLESLRELLRRSVRLTLRSPEARERSL---------AEHRAILDAIRAGDPEAARAAMRAHLEAVRERLR 224
 
Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
15-241 1.96e-42

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 143.92  E-value: 1.96e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  15 TRIADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFVLRKPTTAVGTGLQM 94
Cdd:COG2186    6 RSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDPLAL 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  95 MIELEPDSIGEAVDMRHLLEMA----AVERITAKptlELDSIEEALERLRAAKGSAAEWIAADTNFHVTFIRLAENRFLT 170
Cdd:COG2186   86 LLALDDASLRDLLEARLALEPEaarlAAERATDE---DLARLEAALAEMEAAADDGEAFAEADLAFHRAIAEASGNPLLA 162

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489990483 171 SVFESVHDAVVARAYQSWIVANEPPPWLagkefaaqiALHEPIVAALRANDGAQLVAALTRHQKALEAHMR 241
Cdd:COG2186  163 LLLESLRELLRRSVRLTLRSPEARERSL---------AEHRAILDAIRAGDPEAARAAMRAHLEAVRERLR 224
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 12-232 1.88e-26

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 102.79  E-value: 1.88e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  12 EPVTR--IADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFVLRkPTTA-- 87
Cdd:PRK03837   7 RPIARkkLSEEVEERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQISHGERARVSR-PSADti 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  88 ---VGTGLQMMIELEPDSIGEAVDMRHLLEMAAVERITAKPTLE-LDSIEEALERLRAAKGSAAEWIAADTNFHVTFIRL 163
Cdd:PRK03837  86 igqLSGMAKDFLSQSPDGLAHLKQARLFFESSLARYAAEHATDEqIALLRKALERNSQSLGDNAAFIRSDMEFHRVIAEI 165

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483 164 AENrfltSVFESVHDAVVArayqsWIVANEPP-PWLAGKEfAAQIALHEPIVAALRANDGAQLVAALTRH 232
Cdd:PRK03837 166 PGN----PIFMAIHEALLD-----WLIEARPEvVILHGHE-NVTLQEHIAIVDAIRAHDPDEADRALQSH 225
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 17-80 1.78e-18

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: 76.72  E-value: 1.78e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489990483  17 IADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFV 80
Cdd:cd07377    2 LYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFV 65
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 18-80 2.10e-14

Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the N-terminal HTH region of GntR-like bacterial transcription factors. At the C-terminus there is usually an effector-binding/oligomerization domain. The GntR-like proteins include the following sub-families: MocR, YtrR, FadR, AraR, HutC and PlmA, DevA, DasR. Many of these proteins have been shown experimentally to be autoregulatory, enabling the prediction of operator sites and the discovery of cis/trans relationships. The DasR regulator has been shown to be a global regulator of primary metabolism and development in Streptomyces coelicolor.


Pssm-ID: 306822 [Multi-domain]  Cd Length: 64  Bit Score: 65.71  E-value: 2.10e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489990483   18 ADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFV 80
Cdd:pfam00392   2 YEQVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
21-80 2.04e-13

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 62.98  E-value: 2.04e-13
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483    21 VADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFV 80
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
 
Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
15-241 1.96e-42

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 143.92  E-value: 1.96e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  15 TRIADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFVLRKPTTAVGTGLQM 94
Cdd:COG2186    6 RSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDPLAL 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  95 MIELEPDSIGEAVDMRHLLEMA----AVERITAKptlELDSIEEALERLRAAKGSAAEWIAADTNFHVTFIRLAENRFLT 170
Cdd:COG2186   86 LLALDDASLRDLLEARLALEPEaarlAAERATDE---DLARLEAALAEMEAAADDGEAFAEADLAFHRAIAEASGNPLLA 162

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489990483 171 SVFESVHDAVVARAYQSWIVANEPPPWLagkefaaqiALHEPIVAALRANDGAQLVAALTRHQKALEAHMR 241
Cdd:COG2186  163 LLLESLRELLRRSVRLTLRSPEARERSL---------AEHRAILDAIRAGDPEAARAAMRAHLEAVRERLR 224
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
17-241 2.97e-29

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 109.63  E-value: 2.97e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  17 IADRVADQVRDYIVANDLEPGARLpSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFVlrkpttavgtglqmmI 96
Cdd:COG1802   12 LAEQVYEALREAILSGELPPGERL-SEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARV---------------A 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  97 ELEPDSIGEAVDMRHLLEMAAVERITAKPTLE-LDSIEEALERLRAA--KGSAAEWIAADTNFHVTFIRLAENRFLTSVF 173
Cdd:COG1802   76 PLSPEEIRELYEVRAALEGLAARLAAERATPAdLARLRALLEELEAAaaAGDVAAYLELDREFHRALVEAAGNPRLAELL 155

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489990483 174 ESVHDAVVARAYQSWIVANEPppwlagkefAAQIALHEPIVAALRANDGAQLVAALTRHQKALEAHMR 241
Cdd:COG1802  156 RRLRARLRRYRRLSLRSPGRL---------EESLAEHRAILDALEAGDAEAAAAALRAHLERARERLL 214
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 12-232 1.88e-26

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 102.79  E-value: 1.88e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  12 EPVTR--IADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFVLRkPTTA-- 87
Cdd:PRK03837   7 RPIARkkLSEEVEERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQISHGERARVSR-PSADti 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  88 ---VGTGLQMMIELEPDSIGEAVDMRHLLEMAAVERITAKPTLE-LDSIEEALERLRAAKGSAAEWIAADTNFHVTFIRL 163
Cdd:PRK03837  86 igqLSGMAKDFLSQSPDGLAHLKQARLFFESSLARYAAEHATDEqIALLRKALERNSQSLGDNAAFIRSDMEFHRVIAEI 165

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483 164 AENrfltSVFESVHDAVVArayqsWIVANEPP-PWLAGKEfAAQIALHEPIVAALRANDGAQLVAALTRH 232
Cdd:PRK03837 166 PGN----PIFMAIHEALLD-----WLIEARPEvVILHGHE-NVTLQEHIAIVDAIRAHDPDEADRALQSH 225
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 17-80 1.78e-18

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: 76.72  E-value: 1.78e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489990483  17 IADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFV 80
Cdd:cd07377    2 LYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFV 65
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 16-241 4.22e-16

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 75.19  E-value: 4.22e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  16 RIADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFVLRKPTT----AVGTG 91
Cdd:PRK10421   2 RLSDEVADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRWRHETwseqNIVQP 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  92 LQMMIELEPDSIGEAVDMRHLLEMA----AVERITAKptlELDSIEEALERLRAakGSAAEWIAADTNFHVTFIRLAENR 167
Cdd:PRK10421  82 LKTLMADDPDYSFDILEARHAIEAStawhAAMRATPG---DKEKIQLCFEATLS--EDPDLASQADVRFHLAIAEASHNV 156

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 489990483 168 FLTSVFESVHDAVVARAYQS-WIVANEPPpwlAGKEFAAQialHEPIVAALRANDGAQLVAALTRHQKALEAHMR 241
Cdd:PRK10421 157 VLLQTMRGFFDVLQSSVKQSrQRMYLVPP---VFSQLTEQ---HQAVMDAILAGDAEGARKAMMAHLSFVHTTIK 225
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
20-199 1.23e-14

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 70.66  E-value: 1.23e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  20 RVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFVLRKPTTAVGTGLQMMIELE 99
Cdd:COG2188    9 QIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEPKIEYPLSRLTSFTEEL 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483 100 pdsigEAVDMRHLLEMAAVERITAKP----TLELDSIEE--ALERLRAAKGsaaEWIAADTNFHVT--FIRLAENRF--- 168
Cdd:COG2188   89 -----RARGREPSTRVLSAERVPADEevaeALGLPPGAPvlRIERLRLADG---EPVALETSYLPAalFPGLLEEDLetg 160

                        170       180       190
                 ....*....|....*....|....*....|..
gi 489990483 169 -LTSVFESVHDAVVARAYQsWIVANEPPPWLA 199
Cdd:COG2188  161 sLYELLEERYGLRITRAEQ-RIEAVLADAEEA 191
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 18-80 2.10e-14

Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the N-terminal HTH region of GntR-like bacterial transcription factors. At the C-terminus there is usually an effector-binding/oligomerization domain. The GntR-like proteins include the following sub-families: MocR, YtrR, FadR, AraR, HutC and PlmA, DevA, DasR. Many of these proteins have been shown experimentally to be autoregulatory, enabling the prediction of operator sites and the discovery of cis/trans relationships. The DasR regulator has been shown to be a global regulator of primary metabolism and development in Streptomyces coelicolor.


Pssm-ID: 306822 [Multi-domain]  Cd Length: 64  Bit Score: 65.71  E-value: 2.10e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489990483   18 ADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFV 80
Cdd:pfam00392   2 YEQVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
PRK10225 PRK10225
Uxu operon transcriptional regulator;
16-232 2.40e-14

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 70.43  E-value: 2.40e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  16 RIADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFVLRKPTTAVGTGLQMM 95
Cdd:PRK10225   9 RPYQEVGAMIRDLIIKTPYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAGIYVLDSSGSHNTDSPDAN 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  96 IELEPDSIgEAVDMRHLLEMAAVERITAKPTLE-LDSIEEA--LERLRAAKGSAAEWIAADTNFHVTFIRLAENRFLTSV 172
Cdd:PRK10225  89 VCNDAGPF-ELLQARQLLESNIAEFAALQATREdIVKMRQAlqLEERELASSAPGSSESGDMQFHLAIAEATHNSMLVEL 167

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489990483 173 FEsvhdavvarayQSWIVANEPPPWLAGKEF-------AAQIALHEPIVAALRANDGAQLVAALTRH 232
Cdd:PRK10225 168 FR-----------QSWQWRENNPMWIQLHSHlddslyrKEWLGDHKQILAALIKKDARAAKLAMWQH 223
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
21-80 2.04e-13

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 62.98  E-value: 2.04e-13
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483    21 VADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFV 80
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 105-231 4.11e-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: 61.23  E-value: 4.11e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  105 EAVDMRHLLEMAAVERITAKPTLE-LDSIEEALERLRAA--KGSAAEWIAADTNFHVTFIRLAENRFLTSVFESVHDAVV 181
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEdLAELEALLEALEAAadAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 489990483  182 ARAYQSWIVANEPPPWlagkefaaqIALHEPIVAALRANDGAQLVAALTR 231
Cdd:pfam07729  81 RLRRLLLSSPGRLRAS---------LEEHRAILDAIRARDPEAARAAMRR 121
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 20-80 4.67e-12

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: 64.85  E-value: 4.67e-12
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489990483  20 RVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFV 80
Cdd:COG1167   16 QLADALREAILSGRLPPGDRLPSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSGTFV 76
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 105-232 1.86e-11

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: 59.68  E-value: 1.86e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483   105 EAVDMRHLLEMAAV----ERITAKPTLELDSIEEALERLRAAKGSAAEWIAADTNFHVTFIRLAENRFLTSVFESVHDAV 180
Cdd:smart00895   1 ELYEVRRALEPLAArlaaERATDEDLAALEALLDAMEAAAAAGDDLEEFAELDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|..
gi 489990483   181 VARayqswivaneppPWLAGKEFAAQIALHEPIVAALRANDGAQLVAALTRH 232
Cdd:smart00895  81 RRL------------RRLSLEAARRALDEHRAILDAIRARDAEAARAAMREH 120
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
21-80 7.49e-11

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


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 57.50  E-value: 7.49e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  21 VADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFV 80
Cdd:COG1725   15 IADQIKEAIASGELKPGDRLPSVRELAAELGVNPNTVAKAYRELEDEGLIETRRGKGTFV 74
PRK09990 PRK09990
DNA-binding transcriptional regulator GlcC; Provisional
 16-178 1.81e-10

DNA-binding transcriptional regulator GlcC; Provisional


Pssm-ID: 182186 [Multi-domain]  Cd Length: 251  Bit Score: 59.39  E-value: 1.81e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  16 RIADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFVLRKPTTAVGTGLQMM 95
Cdd:PRK09990   7 PIADVVAERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGSFVARLNRVQDASPLMHL 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  96 IELEPDSIGEAVDMRHLLEmAAVERITAKPTLELD--SIEEALERLRAAKG-----SAAEWIAADTNFHVTFIRLAENRF 168
Cdd:PRK09990  87 FSSQPRTLYDLLEVRALLE-GESARLAALRGTQADfvLITRRYEEMLAAHEnnkeiDPIEHARLDHAFHLAICEASHNPV 165

                        170
                 ....*....|
gi 489990483 169 LTSVFESVHD 178
Cdd:PRK09990 166 LVHTLQSLTD 175
PRK09764 PRK09764
GntR family transcriptional regulator;
20-80 5.71e-07

GntR family transcriptional regulator;


Pssm-ID: 182065 [Multi-domain]  Cd Length: 240  Bit Score: 49.06  E-value: 5.71e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489990483  20 RVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFV 80
Cdd:PRK09764   9 QIADRIREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESIQGSGTYV 69
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
15-180 3.78e-06

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 46.55  E-value: 3.78e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  15 TRIADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFVLRKPTTAVGTGLQM 94
Cdd:PRK09464   9 PKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQSFSDPLVE 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  95 MIELEPDSIGEAVDMRHLLE-MAAVERITAKPTLELDSIEEALERLRAAKGSAAewIAADTNfhvtfirlAENRFLTSVF 173
Cdd:PRK09464  89 LLSDHPESQFDLLETRHALEgIAAYYAALRGTDEDFERIRECHHAIELAQQSGD--LDAEAN--------AVMQYQIAVT 158


                 ....*..
gi 489990483 174 ESVHDAV 180
Cdd:PRK09464 159 EAAHNVV 165
PRK11523 PRK11523
transcriptional regulator ExuR;
15-188 7.38e-06

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 45.99  E-value: 7.38e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  15 TRIADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFVL-RKPTTAVGTGLQ 93
Cdd:PRK11523   7 RRLYQQLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKGSGIHVVsNQPRHQQAADNN 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  94 mmieLEPDSIG--EAVDMRHLLEMAAVE----RITAKPTLELDSIEEALERLRAAKGSaaEWiaaDTNFHVTFIRLAENR 167
Cdd:PRK11523  87 ----MEFANYGpfELLQARQLIESNIAEfaatQVTKQDIMKLMAIQEQARGEDCFRDS--EW---DLQFHVQVALATQNS 157

                        170       180       190
                 ....*....|....*....|....*....|....
gi 489990483 168 FLTSVFE-------------SVHDAVVARAYQSW 188
Cdd:PRK11523 158 ALAAIVEkmwtqrshnpywkKLHEHIDDRTVDNW 191
PRK15481 PRK15481
transcriptional regulatory protein PtsJ; Provisional
 18-69 8.08e-04

transcriptional regulatory protein PtsJ; Provisional


Pssm-ID: 185378 [Multi-domain]  Cd Length: 431  Bit Score: 40.03  E-value: 8.08e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 489990483  18 ADRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGL 69
Cdd:PRK15481   7 ANEIFDSIRQLIQAGRLRPGDSLPPVRELASELGVNRNTVAAAYKRLVTAGL 58
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
28-108 1.86e-03

fatty acid metabolism transcriptional regulator FadR;


Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 38.31  E-value: 1.86e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489990483  28 YIVA----NDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGagafvlrKPT-------TAVGTGLQMMI 96
Cdd:PRK04984  15 YIIEsiwnNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHG-------KPTkvnnfweTSGLNILETLA 87

                         90
                 ....*....|..
gi 489990483  97 ELEPDSIGEAVD 108
Cdd:PRK04984  88 RLDHDSVPQLID 99
PRK14999 PRK14999
histidine utilization repressor; Provisional
 19-80 2.14e-03

histidine utilization repressor; Provisional


Pssm-ID: 184961 [Multi-domain]  Cd Length: 241  Bit Score: 38.38  E-value: 2.14e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 489990483  19 DRVADQVRDYIVANDLEPGARLPSERRLAELVGSSRPTVSQALRSLSVTGLIEIRPGAGAFV 80
Cdd:PRK14999  15 ETVKQDICKKIAGGVWQPHDRIPSEAELVAQYGFSRMTINRALRELTDEGWLVRLQGVGTFV 76
HTH_CRP cd00092
helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic ...
 15-83 4.53e-03

helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.


Pssm-ID: 238044 [Multi-domain]  Cd Length: 67  Bit Score: 34.95  E-value: 4.53e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489990483  15 TRIADRVADQVRDYIVANDLEPGArlpSERRLAELVGSSRPTVSQALRSLSVTGLIEIRpGAGAFVLRK 83
Cdd:cd00092    3 ERLASFLLNLSLRYGAGDLVQLPL---TRQEIADYLGLTRETVSRTLKELEEEGLISRR-GRGKYRVNP 67
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH