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Conserved domains on  [gi|494116375|ref|WP_007056157|]
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IclR family transcriptional regulator [Bifidobacterium longum]

Protein Classification

IclR family transcriptional regulator( domain architecture ID 11444403)

IclR family transcriptional regulator functions as an activator or repressor of genes involved in primary and secondary metabolism, virulence, quorum sensing, and sporulation

CATH:  1.10.10.10|3.30.450.40
Gene Ontology:  GO:0003677|GO:0006355|GO:0003700
PubMed:  16472303|16597823

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IclR COG1414
DNA-binding transcriptional regulator, IclR family [Transcription];
38-288 2.43e-66

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


:

Pssm-ID: 441024 [Multi-domain]  Cd Length: 253  Bit Score: 207.75  E-value: 2.43e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  38 SLAPAADRTLDILEFIASNGQTQAAT-LARELGIPRSTVYQLLEILERHGLVTRLAEQRAYGIGLKTFELGSAYSRQHRV 116
Cdd:COG1414    3 SGVQSLERALAILEALAEAGGGLSLSeLARRLGLPKSTVHRLLATLEEEGYVERDPEGGRYRLGPRLLELGSAALRRLDL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375 117 SQVAHPVLARLVDETGENGHLAVLHGNEIIYVIEERAAHRPPLVSGVGVRLPSHLTATGRAILSALPRNQVRALYPnRQA 196
Cdd:COG1414   83 RRLARPVLEELAEETGETVHLAVLDGDEVVYVARVEGPRPVRVSSRVGSRLPLHATASGKALLAFLPEEELEALLA-RAG 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375 197 FTDRTGIGPKSPKELEATLAETQRTGFAEEHGDVTPGFDSYAVAVRDYNDFPIAGLALTFVSGSLRPEQERSLKTKLRLA 276
Cdd:COG1414  162 LPRFTPNTITDPAALRAELAEIRERGYAVDDGELEPGVRAVAAPVFDADGRVVAALSVSGPSSRLTEERLEELAPALRAA 241

                        250
                 ....*....|..
gi 494116375 277 GTELSRRLGAVG 288
Cdd:COG1414  242 AREISRALGYRP 253
 
Name Accession Description Interval E-value
IclR COG1414
DNA-binding transcriptional regulator, IclR family [Transcription];
38-288 2.43e-66

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


Pssm-ID: 441024 [Multi-domain]  Cd Length: 253  Bit Score: 207.75  E-value: 2.43e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  38 SLAPAADRTLDILEFIASNGQTQAAT-LARELGIPRSTVYQLLEILERHGLVTRLAEQRAYGIGLKTFELGSAYSRQHRV 116
Cdd:COG1414    3 SGVQSLERALAILEALAEAGGGLSLSeLARRLGLPKSTVHRLLATLEEEGYVERDPEGGRYRLGPRLLELGSAALRRLDL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375 117 SQVAHPVLARLVDETGENGHLAVLHGNEIIYVIEERAAHRPPLVSGVGVRLPSHLTATGRAILSALPRNQVRALYPnRQA 196
Cdd:COG1414   83 RRLARPVLEELAEETGETVHLAVLDGDEVVYVARVEGPRPVRVSSRVGSRLPLHATASGKALLAFLPEEELEALLA-RAG 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375 197 FTDRTGIGPKSPKELEATLAETQRTGFAEEHGDVTPGFDSYAVAVRDYNDFPIAGLALTFVSGSLRPEQERSLKTKLRLA 276
Cdd:COG1414  162 LPRFTPNTITDPAALRAELAEIRERGYAVDDGELEPGVRAVAAPVFDADGRVVAALSVSGPSSRLTEERLEELAPALRAA 241

                        250
                 ....*....|..
gi 494116375 277 GTELSRRLGAVG 288
Cdd:COG1414  242 AREISRALGYRP 253
PRK09834 PRK09834
DNA-binding transcriptional regulator;
45-265 2.14e-26

DNA-binding transcriptional regulator;


Pssm-ID: 182100 [Multi-domain]  Cd Length: 263  Bit Score: 104.30  E-value: 2.14e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  45 RTLDILEFI-ASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRLAEQRAYGIGLKTFELGSAYSRQHRVSQVAHPV 123
Cdd:PRK09834  12 RGLMVLRALnRLDGGATVGLLAELTGLHRTTVRRLLETLQEEGYVRRSASDDSFRLTLKVRQLSEGFRDEQWISALAAPL 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375 124 LARLVDETGENGHLAVLHGNEIiyVIEERAAHRPPLV---SGVGVRLPSHLTATGRAILSALPRNQVRALYPNRQAFTDR 200
Cdd:PRK09834  92 LGDLLRRVVWPTDLTTLDVDAM--VIRETTHRFSPLSfhrAMVGRRLPLLLTAAGRAYLAFCPEEEREALLELLASRPGD 169

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 494116375 201 TGIGPKSPKELEATLAETQRTGFAEEHGDVT--PGFDSYAVAVRDyNDFPIAGLALTFVSGSLRPEQ 265
Cdd:PRK09834 170 EDQLARDPARLEAMLARTRKRGYGENYGGWDqqPKIASIAVPVRS-GQRVLGCLNLVYIASAMSIEE 235
pcaR_pcaU TIGR02431
beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Member of this ...
 64-284 4.17e-21

beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU. [Regulatory functions, DNA interactions]


Pssm-ID: 131484 [Multi-domain]  Cd Length: 248  Bit Score: 89.63  E-value: 4.17e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375   64 LARELGIPRSTVYQLLEILERHGLVTrlAEQRAYGIGLKTFELGSAYSRQHRVSQVAHPVLARLVDETGENGHLAVLHGN 143
Cdd:TIGR02431  30 VAEATGLTRAAARRFLLTLVELGYVT--SDGRLFWLTPRVLRLGYAYLSSAPLPKVAQPLLERLSAQTHESCSVAVLDGD 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  144 EIIYVIEERAAHRPPLVSGVGVRLPSHLTATGRAILSALPRNQVRAlYPNRQAFTDRTGIGPKSPKELEATLAETQRTGF 223
Cdd:TIGR02431 108 EIVYVARSPTHRIMSVGLSVGTRLPAYCTSMGRVLLAGLDDEELDE-YLARSTLQALTPRTITDRDALLAELLAVRAQGY 186

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 494116375  224 AEEHGDVTPGFDSYAVAVRDYNDFPIAGLALTFVSGSLRPEQ--ERSLKTkLRLAGTELSRRL 284
Cdd:TIGR02431 187 ALVDQELELGLRSIAVPIRNARGQVVAALNVSTHAARTTPEElvERILPL-LLEAARELRQLL 248
IclR pfam01614
Bacterial transcriptional regulator; This family of bacterial transcriptional regulators ...
 156-282 2.88e-14

Bacterial transcriptional regulator; This family of bacterial transcriptional regulators includes the glycerol operon regulatory protein and acetate operon repressor both of which are members of the iclR family. These proteins have a Helix-Turn-Helix motif at the N-terminus. However this family covers the C-terminal region that binds to regulatory substrates including Glyoxylate, allantoin/ate, indole, aromatic hydrocarbons, sugar acids, succinic semialdehyde, benzoate derivatives, ascorbic acid, glycerol-3-phosphate, glyceraldehyde-3-phosphate and pyruvate (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 426346 [Multi-domain]  Cd Length: 128  Bit Score: 68.08  E-value: 2.88e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  156 RPPLVSGVGVRLPSHLTATGRAILSALPRNQVRAlYPNR---QAFTDRTgigPKSPKELEATLAETQRTGFAEEHGDVTP 232
Cdd:pfam01614   2 RLRAYSAIGRRLPLHATAIGKALLAWLDEEELEA-YLERyelKRLTPNT---ITDPEALLEELAQIREQGYAVDREEHEL 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 494116375  233 GFDSYAVAVRDYNDFPIAGLALTFVSGSLRPEQERSLKTKLRLAGTELSR 282
Cdd:pfam01614  78 GVRCIAAPIFDASGDVVAAISVSGPTSRLTEEELDYLLALLREAARKISR 127
HTH_ICLR smart00346
helix_turn_helix isocitrate lyase regulation;
44-129 3.22e-13

helix_turn_helix isocitrate lyase regulation;


Pssm-ID: 214629 [Multi-domain]  Cd Length: 91  Bit Score: 64.14  E-value: 3.22e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375    44 DRTLDILEFIA-SNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRLAEQRAYGIGLKTFELGSAYSRQHRVSQVAHP 122
Cdd:smart00346   5 ERGLAVLRALAeEPGGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQDGQNGRYRLGPKVLELGQSYLSSLDLREVAKP 84


                   ....*..
gi 494116375   123 VLARLVD 129
Cdd:smart00346  85 VLEELSR 91
CasRa_I-A cd09655
CRISPR/Cas system-associated transcriptional regulator CasRa; CRISPR (Clustered Regularly ...
 24-91 2.40e-06

CRISPR/Cas system-associated transcriptional regulator CasRa; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Predicted transcriptional regulator of CRISPR/Cas system


Pssm-ID: 187786 [Multi-domain]  Cd Length: 198  Bit Score: 47.37  E-value: 2.40e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 494116375  24 SEREHQTSSSAPRVSLAPAADRTLDILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRL 91
Cdd:cd09655  119 SEEEIDFIELDLVPLLAGLSREELKILEVLKAKGEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQK 186
 
Name Accession Description Interval E-value
IclR COG1414
DNA-binding transcriptional regulator, IclR family [Transcription];
38-288 2.43e-66

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


Pssm-ID: 441024 [Multi-domain]  Cd Length: 253  Bit Score: 207.75  E-value: 2.43e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  38 SLAPAADRTLDILEFIASNGQTQAAT-LARELGIPRSTVYQLLEILERHGLVTRLAEQRAYGIGLKTFELGSAYSRQHRV 116
Cdd:COG1414    3 SGVQSLERALAILEALAEAGGGLSLSeLARRLGLPKSTVHRLLATLEEEGYVERDPEGGRYRLGPRLLELGSAALRRLDL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375 117 SQVAHPVLARLVDETGENGHLAVLHGNEIIYVIEERAAHRPPLVSGVGVRLPSHLTATGRAILSALPRNQVRALYPnRQA 196
Cdd:COG1414   83 RRLARPVLEELAEETGETVHLAVLDGDEVVYVARVEGPRPVRVSSRVGSRLPLHATASGKALLAFLPEEELEALLA-RAG 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375 197 FTDRTGIGPKSPKELEATLAETQRTGFAEEHGDVTPGFDSYAVAVRDYNDFPIAGLALTFVSGSLRPEQERSLKTKLRLA 276
Cdd:COG1414  162 LPRFTPNTITDPAALRAELAEIRERGYAVDDGELEPGVRAVAAPVFDADGRVVAALSVSGPSSRLTEERLEELAPALRAA 241

                        250
                 ....*....|..
gi 494116375 277 GTELSRRLGAVG 288
Cdd:COG1414  242 AREISRALGYRP 253
PRK09834 PRK09834
DNA-binding transcriptional regulator;
45-265 2.14e-26

DNA-binding transcriptional regulator;


Pssm-ID: 182100 [Multi-domain]  Cd Length: 263  Bit Score: 104.30  E-value: 2.14e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  45 RTLDILEFI-ASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRLAEQRAYGIGLKTFELGSAYSRQHRVSQVAHPV 123
Cdd:PRK09834  12 RGLMVLRALnRLDGGATVGLLAELTGLHRTTVRRLLETLQEEGYVRRSASDDSFRLTLKVRQLSEGFRDEQWISALAAPL 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375 124 LARLVDETGENGHLAVLHGNEIiyVIEERAAHRPPLV---SGVGVRLPSHLTATGRAILSALPRNQVRALYPNRQAFTDR 200
Cdd:PRK09834  92 LGDLLRRVVWPTDLTTLDVDAM--VIRETTHRFSPLSfhrAMVGRRLPLLLTAAGRAYLAFCPEEEREALLELLASRPGD 169

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 494116375 201 TGIGPKSPKELEATLAETQRTGFAEEHGDVT--PGFDSYAVAVRDyNDFPIAGLALTFVSGSLRPEQ 265
Cdd:PRK09834 170 EDQLARDPARLEAMLARTRKRGYGENYGGWDqqPKIASIAVPVRS-GQRVLGCLNLVYIASAMSIEE 235
PRK11569 PRK11569
glyoxylate bypass operon transcriptional repressor IclR;
11-227 1.48e-23

glyoxylate bypass operon transcriptional repressor IclR;


Pssm-ID: 183206 [Multi-domain]  Cd Length: 274  Bit Score: 96.80  E-value: 1.48e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  11 TEPRTVKRAQvKPserehqTSSSAPRVSLAPAADRTLDILEFIA-SNGQTQAATLARELGIPRSTVYQLLEILERHGLVT 89
Cdd:PRK11569   2 VAPIPAKRGR-KP------AAATAPATGQVQSLTRGLKLLEWIAeSNGSVALTELAQQAGLPNSTTHRLLTTMQQQGFVR 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  90 RLAEQRAYGIGLKTFELGSAYSRQHRVSQVAHPVLARLVDETGENGHLAVLHGNE----IIYVIEERAAHRppLVSGVGV 165
Cdd:PRK11569  75 QVGELGHWAIGAHAFIVGSSFLQSRNLLAIVHPILRNLMEDSGETVNLAVLDQSDhqaiIIDQVQCTALMR--MSAPIGG 152

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 494116375 166 RLPSHLTATGRAILSALPRNQVRALYPNR--QAFTDRTGIGPKSPKEleaTLAETQRTGFA---EEH 227
Cdd:PRK11569 153 KLPMHASGAGKAFLAQLSEEQVTKLLHRKglHAYTHATLVSPVHLKE---DLAQTRKRGYSfddEEH 216
pcaR_pcaU TIGR02431
beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Member of this ...
 64-284 4.17e-21

beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU. [Regulatory functions, DNA interactions]


Pssm-ID: 131484 [Multi-domain]  Cd Length: 248  Bit Score: 89.63  E-value: 4.17e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375   64 LARELGIPRSTVYQLLEILERHGLVTrlAEQRAYGIGLKTFELGSAYSRQHRVSQVAHPVLARLVDETGENGHLAVLHGN 143
Cdd:TIGR02431  30 VAEATGLTRAAARRFLLTLVELGYVT--SDGRLFWLTPRVLRLGYAYLSSAPLPKVAQPLLERLSAQTHESCSVAVLDGD 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  144 EIIYVIEERAAHRPPLVSGVGVRLPSHLTATGRAILSALPRNQVRAlYPNRQAFTDRTGIGPKSPKELEATLAETQRTGF 223
Cdd:TIGR02431 108 EIVYVARSPTHRIMSVGLSVGTRLPAYCTSMGRVLLAGLDDEELDE-YLARSTLQALTPRTITDRDALLAELLAVRAQGY 186

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 494116375  224 AEEHGDVTPGFDSYAVAVRDYNDFPIAGLALTFVSGSLRPEQ--ERSLKTkLRLAGTELSRRL 284
Cdd:TIGR02431 187 ALVDQELELGLRSIAVPIRNARGQVVAALNVSTHAARTTPEElvERILPL-LLEAARELRQLL 248
PRK10163 PRK10163
HTH-type transcriptional repressor AllR;
20-285 1.36e-20

HTH-type transcriptional repressor AllR;


Pssm-ID: 182279 [Multi-domain]  Cd Length: 271  Bit Score: 88.91  E-value: 1.36e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  20 QVKPSEREHQTSSSAPRVslAPAADRTLDILEFIA-SNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRLAEQRAYG 98
Cdd:PRK10163   3 EVRRRGRPGQAEPVAQKG--AQALERGIAILQYLEkSGGSSSVSDISLNLDLPLSTTFRLLKVLQAADFVYQDSQLGWWH 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  99 IGLKTFELGSAYSRQHRVSQVAHPVLARLVDETGENGHLAVLHGNEIIYVIEERAAHRPPLVSGVGVRLPSHLTATGRAI 178
Cdd:PRK10163  81 IGLGVFNVGAAYIHNRDVLSVAGPFMRRLMLLSGETVNVAIRNGNEAVLIGQLECKSMVRMCAPLGSRLPLHASGAGKAL 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375 179 LSALPRNQVRALYPNR--QAFTDRTGIG-PKSPKELEatlaETQRTGFAEEHGDVTPGFDSYAVAVRDYNDFPIAGLALT 255
Cdd:PRK10163 161 LYPLAEEELMSIILQTglQQFTPTTLVDmPTLLKDLE----QARELGYTVDKEEHVVGLNCIASAIYDDVGSVVAAISIS 236

                        250       260       270
                 ....*....|....*....|....*....|
gi 494116375 256 FVSGSLRPEQERSLKTKLRLAGTELSRRLG 285
Cdd:PRK10163 237 GPSSRLTEDRFVSQGELVRDTARDISTALG 266
PRK15090 PRK15090
DNA-binding transcriptional regulator KdgR; Provisional
 49-285 2.95e-18

DNA-binding transcriptional regulator KdgR; Provisional


Pssm-ID: 185046 [Multi-domain]  Cd Length: 257  Bit Score: 81.99  E-value: 2.95e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  49 ILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRLAEQRAYGIGLKTFELGSAYSRQHRVSQVAHPVLARLV 128
Cdd:PRK15090  19 ILQALGEEREIGITELSQRVMMSKSTVYRFLQTMKTLGYVAQEGESEKYSLTLKLFELGAKALQNVDLIRSADIQMREIS 98

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375 129 DETGENGHLAVLHGNEIIYVIEERAAHRPPLVSGVGVRLPSHLTATGRAILSALPRNQVRALYPNRQaFTDRTgigpksP 208
Cdd:PRK15090  99 RLTKETIHLGALDEDSIVYIHKIDSMYNLRMYSRIGRRNPLYSTAIGKVLLAWRDRDEVREILSGVE-FKRST------E 171

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375 209 KELEAT------LAETQRTGFAEEHGDVTPGFDSYAVAVRDYNDFPIAGLALTFVSGSLRPEQERSLKTKLRLAGTELSR 282
Cdd:PRK15090 172 KTITSTeallpvLDQVREQGYGEDNEEQEEGLRCIAVPVFDRFGVVIAGLSISFPTLRFSEERKQEYVAMLHTAARKISE 251


                 ...
gi 494116375 283 RLG 285
Cdd:PRK15090 252 QMG 254
IclR pfam01614
Bacterial transcriptional regulator; This family of bacterial transcriptional regulators ...
 156-282 2.88e-14

Bacterial transcriptional regulator; This family of bacterial transcriptional regulators includes the glycerol operon regulatory protein and acetate operon repressor both of which are members of the iclR family. These proteins have a Helix-Turn-Helix motif at the N-terminus. However this family covers the C-terminal region that binds to regulatory substrates including Glyoxylate, allantoin/ate, indole, aromatic hydrocarbons, sugar acids, succinic semialdehyde, benzoate derivatives, ascorbic acid, glycerol-3-phosphate, glyceraldehyde-3-phosphate and pyruvate (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 426346 [Multi-domain]  Cd Length: 128  Bit Score: 68.08  E-value: 2.88e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  156 RPPLVSGVGVRLPSHLTATGRAILSALPRNQVRAlYPNR---QAFTDRTgigPKSPKELEATLAETQRTGFAEEHGDVTP 232
Cdd:pfam01614   2 RLRAYSAIGRRLPLHATAIGKALLAWLDEEELEA-YLERyelKRLTPNT---ITDPEALLEELAQIREQGYAVDREEHEL 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 494116375  233 GFDSYAVAVRDYNDFPIAGLALTFVSGSLRPEQERSLKTKLRLAGTELSR 282
Cdd:pfam01614  78 GVRCIAAPIFDASGDVVAAISVSGPTSRLTEEELDYLLALLREAARKISR 127
HTH_ICLR smart00346
helix_turn_helix isocitrate lyase regulation;
44-129 3.22e-13

helix_turn_helix isocitrate lyase regulation;


Pssm-ID: 214629 [Multi-domain]  Cd Length: 91  Bit Score: 64.14  E-value: 3.22e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375    44 DRTLDILEFIA-SNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRLAEQRAYGIGLKTFELGSAYSRQHRVSQVAHP 122
Cdd:smart00346   5 ERGLAVLRALAeEPGGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQDGQNGRYRLGPKVLELGQSYLSSLDLREVAKP 84


                   ....*..
gi 494116375   123 VLARLVD 129
Cdd:smart00346  85 VLEELSR 91
HTH_IclR pfam09339
IclR helix-turn-helix domain;
42-90 2.95e-08

IclR helix-turn-helix domain;


Pssm-ID: 430539 [Multi-domain]  Cd Length: 52  Bit Score: 49.33  E-value: 2.95e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 494116375   42 AADRTLDILEFIASNGQTQAAT-LARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:pfam09339   1 SLDRALAILDALAEAPGPLTLTeIARRTGLPKSTAHRLLQTLVELGYVEQ 50
cas_HTH TIGR01884
CRISPR locus-related DNA-binding protein; Most but not all examples of this family are ...
 24-91 1.18e-06

CRISPR locus-related DNA-binding protein; Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity. [Regulatory functions, DNA interactions, , ]


Pssm-ID: 273852 [Multi-domain]  Cd Length: 203  Bit Score: 48.12  E-value: 1.18e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 494116375   24 SEREHQTSSSAPRVSLAPAADRTLDILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRL 91
Cdd:TIGR01884 123 SEELISFIDLDLVPLLAGLSREELKILEVLKATGEKSVKNIAKKLGKSLSTISRHLAELEKKGLVEQK 190
CasRa_I-A cd09655
CRISPR/Cas system-associated transcriptional regulator CasRa; CRISPR (Clustered Regularly ...
 24-91 2.40e-06

CRISPR/Cas system-associated transcriptional regulator CasRa; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Predicted transcriptional regulator of CRISPR/Cas system


Pssm-ID: 187786 [Multi-domain]  Cd Length: 198  Bit Score: 47.37  E-value: 2.40e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 494116375  24 SEREHQTSSSAPRVSLAPAADRTLDILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRL 91
Cdd:cd09655  119 SEEEIDFIELDLVPLLAGLSREELKILEVLKAKGEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQK 186
COG1777 COG1777
Predicted transcriptional regulator, ArsR family [Transcription];
47-106 4.25e-06

Predicted transcriptional regulator, ArsR family [Transcription];


Pssm-ID: 441383  Cd Length: 113  Bit Score: 45.02  E-value: 4.25e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  47 LDILEFIASNGQTqAATLARELGIPRSTVYQLLEILERHGLVTRLAEQRAYGIGLKTFEL 106
Cdd:COG1777   20 RRILALLSEEPAY-VSELARELGVSRQAVYKHLRKLEEAGLVESYREGREDGRARKYYRL 78
COG2512 COG2512
Predicted transcriptional regulator, contains CW (cell wall-binding) repeats and an HTH domain ...
 48-102 5.87e-06

Predicted transcriptional regulator, contains CW (cell wall-binding) repeats and an HTH domain [General function prediction only];


Pssm-ID: 442002 [Multi-domain]  Cd Length: 80  Bit Score: 43.36  E-value: 5.87e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 494116375  48 DILEFIASNGQ--TQAaTLARELGIPRSTVYQLLEILERHGLVTRLAEQRAYGIGLK 102
Cdd:COG2512   19 RVLELLRENGGrmTQS-EIVKETGWSKSKVSRLLSRLEERGLIEKERVGRENVVELP 74
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 43-90 9.57e-06

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


Pssm-ID: 238042 [Multi-domain]  Cd Length: 78  Bit Score: 43.06  E-value: 9.57e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 494116375  43 ADRT-LDILEFIASNGQTQAAtLARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:cd00090    5 SDPTrLRILRLLLEGPLTVSE-LAERLGLSQSTVSRHLKKLEEAGLVES 52
HTH_20 pfam12840
Helix-turn-helix domain; This domain represents a DNA-binding Helix-turn-helix domain found in ...
 43-95 2.01e-05

Helix-turn-helix domain; This domain represents a DNA-binding Helix-turn-helix domain found in transcriptional regulatory proteins.


Pssm-ID: 432824 [Multi-domain]  Cd Length: 61  Bit Score: 41.37  E-value: 2.01e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 494116375   43 ADRT-LDILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRLAEQR 95
Cdd:pfam12840   8 ADPTrLRILRALVGDEPLTASELARRLDISRNTLSYHLRKLEEAGLVEVVREGR 61
MarR_2 pfam12802
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 47-90 4.01e-05

MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.


Pssm-ID: 432797 [Multi-domain]  Cd Length: 60  Bit Score: 40.65  E-value: 4.01e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 494116375   47 LDILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:pfam12802   8 FRVLLALARNPGLTVAELARRLGISKQTVSRLVKRLEAKGLVER 51
COG2345 COG2345
Predicted transcriptional regulator, ArsR family [Transcription];
30-95 6.63e-05

Predicted transcriptional regulator, ArsR family [Transcription];


Pssm-ID: 441914 [Multi-domain]  Cd Length: 217  Bit Score: 42.99  E-value: 6.63e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 494116375  30 TSSSAPRVSLAPAADRtldILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRLAEQR 95
Cdd:COG2345    2 TDTPALAALADPTRRR---ILELLKRAGPVTAAELAEALGLTPNAVRRHLDALEEEGLVERETERR 64
TrmB pfam01978
Sugar-specific transcriptional regulator TrmB; One member of this family, TrmB, has been shown ...
 55-90 1.20e-04

Sugar-specific transcriptional regulator TrmB; One member of this family, TrmB, has been shown to be a sugar-specific transcriptional regulator of the trehalose/maltose ABC transporter in Thermococcus litoralis.


Pssm-ID: 396525 [Multi-domain]  Cd Length: 67  Bit Score: 39.43  E-value: 1.20e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 494116375   55 SNGQTQAATLARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:pfam01978  19 KLGPATADEIAEESGVPRSKVYEVLRSLEDKGLVER 54
MarR COG1846
DNA-binding transcriptional regulator, MarR family [Transcription];
47-90 1.48e-04

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


Pssm-ID: 441451 [Multi-domain]  Cd Length: 142  Bit Score: 41.11  E-value: 1.48e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 494116375  47 LDILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:COG1846   41 FRVLAALAEAGGLTQSELAERLGLTKSTVSRLLDRLEEKGLVER 84
COG3398 COG3398
Predicted transcriptional regulator, contains two HTH domains [Transcription];
48-90 1.83e-04

Predicted transcriptional regulator, contains two HTH domains [Transcription];


Pssm-ID: 442625 [Multi-domain]  Cd Length: 159  Bit Score: 41.02  E-value: 1.83e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 494116375  48 DILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:COG3398  101 RILLYLLENPGATNKELAEELGISRSTVSWHLKRLEEDGLVER 143
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
48-90 1.99e-04

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 38.73  E-value: 1.99e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|...
gi 494116375    48 DILEFIASNGQTqAATLARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:smart00418   1 KILKLLAEGELC-VCELAEILGLSQSTVSHHLKKLREAGLVES 42
COG1373 COG1373
Predicted ATPase, AAA+ superfamily [General function prediction only];
43-103 2.36e-04

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440984 [Multi-domain]  Cd Length: 405  Bit Score: 42.24  E-value: 2.36e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 494116375  43 ADRTLDILEFIASN-GQT-QAATLARELGIPRSTVYQLLEILERHGLVTRLaeqRAYGIGLKT 103
Cdd:COG1373  215 PELLRRLLRSLASNlGQLfSYSKLANDLGISKKTVKRYLDYLEDAFLIFRL---PPYDLNLKK 274
YrhO COG1378
Sugar-specific transcriptional regulator TrmB [Transcription];
55-90 3.38e-04

Sugar-specific transcriptional regulator TrmB [Transcription];


Pssm-ID: 440988 [Multi-domain]  Cd Length: 238  Bit Score: 41.16  E-value: 3.38e-04
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 494116375  55 SNGQTQAATLARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:COG1378   24 ELGPATASELAKASGVPRSRVYDVLESLEEKGLVEV 59
Lrp COG1522
DNA-binding transcriptional regulator, Lrp family [Transcription];
44-90 7.25e-04

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


Pssm-ID: 441131 [Multi-domain]  Cd Length: 138  Bit Score: 38.99  E-value: 7.25e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 494116375  44 DRT-LDILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:COG1522    4 DEIdRRILRLLQEDGRLSFAELAERVGLSESTVLRRVRRLEEAGVIRG 51
HTH_24 pfam13412
Winged helix-turn-helix DNA-binding;
44-88 7.32e-04

Winged helix-turn-helix DNA-binding;


Pssm-ID: 404317 [Multi-domain]  Cd Length: 45  Bit Score: 36.64  E-value: 7.32e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 494116375   44 DRTLDILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLV 88
Cdd:pfam13412   1 ETDRKILNLLQENPRISQRELAERLGLSPSTVNRRLKRLEEEGVI 45
COG4189 COG4189
Predicted transcriptional regulator, ArsR family [Transcription];
47-89 7.38e-04

Predicted transcriptional regulator, ArsR family [Transcription];


Pssm-ID: 443343 [Multi-domain]  Cd Length: 97  Bit Score: 38.02  E-value: 7.38e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 494116375  47 LDILEFIASNGQTqAATLARELGIPRSTVYQLLEILERHGLVT 89
Cdd:COG4189   22 LRILRLLAEEPLN-VNELAEALGLPKSTVSYHIRKLEEAGLIR 63
ArsR COG0640
DNA-binding transcriptional regulator, ArsR family [Transcription];
43-90 1.51e-03

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


Pssm-ID: 440405 [Multi-domain]  Cd Length: 92  Bit Score: 37.18  E-value: 1.51e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 494116375  43 ADRT-LDILEFIASNGQTqAATLARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:COG0640   18 ADPTrLRILRLLAEGELC-VGELAEALGLSQSTVSHHLKVLREAGLVTS 65
COG3355 COG3355
Predicted transcriptional regulator [Transcription];
47-95 1.65e-03

Predicted transcriptional regulator [Transcription];


Pssm-ID: 442583 [Multi-domain]  Cd Length: 131  Bit Score: 37.64  E-value: 1.65e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 494116375  47 LDILEFIASNGQ--TqAATLARELGIPRSTVYQLLEILERHGLVTRlaEQR 95
Cdd:COG3355   30 AEVYLILLENGEplT-VEELAEALDRSRSTVYRSLQKLLEAGLVER--EKR 77
MntR COG1321
Mn-dependent transcriptional regulator MntR, DtxR family [Transcription];
49-116 2.78e-03

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


Pssm-ID: 440932 [Multi-domain]  Cd Length: 135  Bit Score: 37.11  E-value: 2.78e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 494116375  49 ILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRlaeQRAYGIGL--KTFELGSAYSRQHRV 116
Cdd:COG1321   15 IYELSEEGGPVRTSDIAERLGVSPPSVTEMLKKLEEKGLVEY---EPYGGITLteEGRELALRIVRRHRL 81
GlpR COG1349
DNA-binding transcriptional regulator of sugar metabolism, DeoR/GlpR family [Transcription, ...
 42-90 4.46e-03

DNA-binding transcriptional regulator of sugar metabolism, DeoR/GlpR family [Transcription, Carbohydrate transport and metabolism];


Pssm-ID: 440960 [Multi-domain]  Cd Length: 254  Bit Score: 37.81  E-value: 4.46e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 494116375  42 AADRTLDILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:COG1349    3 AEERRQKILELLRERGRVSVEELAERLGVSEETIRRDLAELEEQGLLRR 51
Zalpha smart00550
Z-DNA-binding domain in adenosine deaminases; Helix-turn-helix-containing domain. Also known ...
 49-90 4.54e-03

Z-DNA-binding domain in adenosine deaminases; Helix-turn-helix-containing domain. Also known as Zab.


Pssm-ID: 128823  Cd Length: 68  Bit Score: 35.00  E-value: 4.54e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 494116375    49 ILEFIASNG--QTQAATLARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:smart00550  11 ILEFLENSGdeTSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCK 54
COG4742 COG4742
Predicted transcriptional regulator, contains HTH domain [Transcription];
44-90 6.75e-03

Predicted transcriptional regulator, contains HTH domain [Transcription];


Pssm-ID: 443776 [Multi-domain]  Cd Length: 267  Bit Score: 37.18  E-value: 6.75e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 494116375  44 DRTLDILEFIASNGQTqAATLARELGIPRSTVYQLLEILERHGLVTR 90
Cdd:COG4742   16 EKRKNILLLLAEGPKT-RSELAESLDVSRSTILRQLKELEERGLIER 61
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
47-91 7.97e-03

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 35.26  E-value: 7.97e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 494116375    47 LDILEFIASNGQTQAATLARELGIPRSTVYQLLEILERHGLVTRL 91
Cdd:smart00347  13 FLVLRILYEEGPLSVSELAKRLGVSPSTVTRVLDRLEKKGLVRRE 57
 
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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