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Conserved domains on  [gi|1734544588|gb|TZB65222|]
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transcriptional regulator YdeO [Escherichia coli]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 11484528)

AraC family transcriptional regulator controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 1-253 0e+00

transcriptional regulator YdeO; Provisional


:

Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 500.00  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588   1 MSLVCSVIFIHHAFNANILDKDYAFSDGEILMVDNAVRTHFEPYERHFKEIGFNENTIKKYLQCTNIQTVTVPVPAKFLR 80
Cdd:PRK09940    1 MSLVCSVIFIHHAFNANILDKDYAFSDGEILMVDNAVRTHFEPYERHFKEIGFNENTIKKYLQCTNIQTVTVPVPAKFLR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588  81 ASNVPTGLLNEMIAYLNSEERNHHNFSELLLFSCLSIFAACKGFITLLTNGVLSVSGKVRNIVNMKLAHPWKLKDICDCL 160
Cdd:PRK09940   81 ASNVPTGLLNEMIAYLNSEERNHHNFSELLLFSCLSIFAACKGFITLLTNGVLSVSGKVRNIVNMKLAHPWKLKDICDCL 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 161 YISESLLKKKLKQEQTTFSQILLDARMQHAKNLIRVEGSVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVSKEYRCQSHT 240
Cdd:PRK09940  161 YISESLLKKKLKQEQTTFSQILLDARMQHAKNLIRVEGSVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVSKEYRCQRHT 240

                         250
                  ....*....|...
gi 1734544588 241 GMNTGNTMSALAI 253
Cdd:PRK09940  241 GMNTGNTMSALAI 253
 
Name Accession Description Interval E-value
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 1-253 0e+00

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 500.00  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588   1 MSLVCSVIFIHHAFNANILDKDYAFSDGEILMVDNAVRTHFEPYERHFKEIGFNENTIKKYLQCTNIQTVTVPVPAKFLR 80
Cdd:PRK09940    1 MSLVCSVIFIHHAFNANILDKDYAFSDGEILMVDNAVRTHFEPYERHFKEIGFNENTIKKYLQCTNIQTVTVPVPAKFLR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588  81 ASNVPTGLLNEMIAYLNSEERNHHNFSELLLFSCLSIFAACKGFITLLTNGVLSVSGKVRNIVNMKLAHPWKLKDICDCL 160
Cdd:PRK09940   81 ASNVPTGLLNEMIAYLNSEERNHHNFSELLLFSCLSIFAACKGFITLLTNGVLSVSGKVRNIVNMKLAHPWKLKDICDCL 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 161 YISESLLKKKLKQEQTTFSQILLDARMQHAKNLIRVEGSVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVSKEYRCQSHT 240
Cdd:PRK09940  161 YISESLLKKKLKQEQTTFSQILLDARMQHAKNLIRVEGSVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVSKEYRCQRHT 240

                         250
                  ....*....|...
gi 1734544588 241 GMNTGNTMSALAI 253
Cdd:PRK09940  241 GMNTGNTMSALAI 253
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
150-235 1.82e-27

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 100.71  E-value: 1.82e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588  150 PWKLKDICDCLYISESLLKKKLKQE-QTTFSQILLDARMQHAKNLIRV-EGSVNKIAEQCGYASTSYFIYAFRKHFGNSP 227
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDtDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....*...
gi 1734544588  228 krvsKEYR 235
Cdd:smart00342  81 ----SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
152-235 1.69e-18

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 82.14  E-value: 1.69e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 152 KLKDICDCLYISESLLKKKLKQE-QTTFSQILLDARMQHAKNLIRVEG-SVNKIAEQCGYASTSYFIYAFRKHFGNSPKR 229
Cdd:COG2207   170 TLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDlSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                  ....*.
gi 1734544588 230 VSKEYR 235
Cdd:COG2207   250 YRKRLR 255
HTH_18 pfam12833
Helix-turn-helix domain;
156-235 2.81e-15

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 68.77  E-value: 2.81e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 156 ICDCLYISESLLKKKLKQE-QTTFSQILLDARMQHAKNLIRVEG--SVNKIAEQCGYASTSYFIYAFRKHFGNSPkrvsK 232
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLLEDTglSVAEIALALGFSDASHFSRAFRRLFGLTP----S 76


                  ...
gi 1734544588 233 EYR 235
Cdd:pfam12833  77 EYR 79
 
Name Accession Description Interval E-value
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 1-253 0e+00

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 500.00  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588   1 MSLVCSVIFIHHAFNANILDKDYAFSDGEILMVDNAVRTHFEPYERHFKEIGFNENTIKKYLQCTNIQTVTVPVPAKFLR 80
Cdd:PRK09940    1 MSLVCSVIFIHHAFNANILDKDYAFSDGEILMVDNAVRTHFEPYERHFKEIGFNENTIKKYLQCTNIQTVTVPVPAKFLR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588  81 ASNVPTGLLNEMIAYLNSEERNHHNFSELLLFSCLSIFAACKGFITLLTNGVLSVSGKVRNIVNMKLAHPWKLKDICDCL 160
Cdd:PRK09940   81 ASNVPTGLLNEMIAYLNSEERNHHNFSELLLFSCLSIFAACKGFITLLTNGVLSVSGKVRNIVNMKLAHPWKLKDICDCL 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 161 YISESLLKKKLKQEQTTFSQILLDARMQHAKNLIRVEGSVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVSKEYRCQSHT 240
Cdd:PRK09940  161 YISESLLKKKLKQEQTTFSQILLDARMQHAKNLIRVEGSVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVSKEYRCQRHT 240

                         250
                  ....*....|...
gi 1734544588 241 GMNTGNTMSALAI 253
Cdd:PRK09940  241 GMNTGNTMSALAI 253
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 110-250 5.46e-30

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 113.10  E-value: 5.46e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 110 LLFSCLSIFAACKGFITLLTNgVL--SVSGKVRNIVNMKLAHPWKLKDICDCLYISESLLKKKLKQEQTTFSQILLDARM 187
Cdd:PRK09978  117 LIFALLSVFLEDEHFIPLLLN-VLqpNMRTRVCTVINNNIAHEWTLARIASELLMSPSLLKKKLREEETSYSQLLTECRM 195

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1734544588 188 QHAKNLIRVEG-SVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVsKEYRCQSHTGMNTGNTMSA 250
Cdd:PRK09978  196 QRALQLIVIHGfSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEY-QERSAQGLPNRDSAASIVA 258
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
150-235 1.82e-27

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 100.71  E-value: 1.82e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588  150 PWKLKDICDCLYISESLLKKKLKQE-QTTFSQILLDARMQHAKNLIRV-EGSVNKIAEQCGYASTSYFIYAFRKHFGNSP 227
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDtDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....*...
gi 1734544588  228 krvsKEYR 235
Cdd:smart00342  81 ----SEYR 84
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 127-227 4.96e-22

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 92.37  E-value: 4.96e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 127 LLTNGVLSVSGKVRNIVNMKLAHPWKLKDICDCLYISESLLKKKLKQEQTTFSQILLDARMQHAKNLIRV-EGSVNKIAE 205
Cdd:PRK15185  199 ILSSAQITLKERVYNIISSSPSRQWKLTDVADHIFMSTSTLKRKLAEEGTSFSDIYLSARMNQAAKLLRIgNHNVNAVAL 278

                          90       100
                  ....*....|....*....|..
gi 1734544588 206 QCGYASTSYFIYAFRKHFGNSP 227
Cdd:PRK15185  279 KCGYDSTSYFIQCFKKYFKTTP 300
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 134-227 9.83e-22

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 91.28  E-value: 9.83e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 134 SVSGKVRNIVNMKLAHPWKLKDICDCLYISESLLKKKLKQEQTTFSQILLDARMQHAKNLIR-VEGSVNKIAEQCGYAST 212
Cdd:PRK15186  181 TLAENIYNIIISDISRKWALKDISDSLYMSCSTLKRKLKQENTSFSEVYLNARMNKATKLLRnSEYNITRVAYMCGYDSA 260

                          90
                  ....*....|....*
gi 1734544588 213 SYFIYAFRKHFGNSP 227
Cdd:PRK15186  261 SYFTCVFKKHFKTTP 275
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
152-235 1.69e-18

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 82.14  E-value: 1.69e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 152 KLKDICDCLYISESLLKKKLKQE-QTTFSQILLDARMQHAKNLIRVEG-SVNKIAEQCGYASTSYFIYAFRKHFGNSPKR 229
Cdd:COG2207   170 TLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDlSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                  ....*.
gi 1734544588 230 VSKEYR 235
Cdd:COG2207   250 YRKRLR 255
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
 102-227 9.52e-17

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 77.77  E-value: 9.52e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 102 NHHNFSELLLFSCLSIFAACKGFITLLTNGV-LSVSGKVRNIVNMKLAHPWKLKDICDCLYISESLLKKKLKQEQTTFSQ 180
Cdd:PRK15044  159 DDHDYSYFSLMYLISAFVRKPGGFDFLERAIkITTKEKVYNIIISDLTRKWSQAEVAGKLFMSVSSLKRKLAAEEVSFSK 238

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 1734544588 181 ILLDARMQHAKNLIRV-EGSVNKIAEQCGYASTSYFIYAFRKHFGNSP 227
Cdd:PRK15044  239 IYLDARMNQAIKLLRMgAGNISQVATMCGYDTPSYFIAIFKRHFKITP 286
HTH_18 pfam12833
Helix-turn-helix domain;
156-235 2.81e-15

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 68.77  E-value: 2.81e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 156 ICDCLYISESLLKKKLKQE-QTTFSQILLDARMQHAKNLIRVEG--SVNKIAEQCGYASTSYFIYAFRKHFGNSPkrvsK 232
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLLEDTglSVAEIALALGFSDASHFSRAFRRLFGLTP----S 76


                  ...
gi 1734544588 233 EYR 235
Cdd:pfam12833  77 EYR 79
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 149-235 6.84e-10

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 58.53  E-value: 6.84e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 149 HPWKLKDICDCLYISESLLKKKLKQE-QTTFSQILLDARMQHAKNLIRVEGSVNKIAEQCGYASTSYFIYAFRKHFGNSP 227
Cdd:COG2169    99 DRPSLEDLAARLGLSPRHLRRLFKAHtGVTPKAYARARRLLRARQLLQTGLSVTDAAYAAGFGSLSRFYEAFKKLLGMTP 178


                  ....*...
gi 1734544588 228 krvsKEYR 235
Cdd:COG2169   179 ----SAYR 182
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 147-235 3.51e-09

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 56.32  E-value: 3.51e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 147 LAHPWKLKDICDCLYISESLLKKKLKQE-QTTFSQILLDARMQHAKNLIRVEG-SVNKIAEQCGYASTSYFIYAFRKHFG 224
Cdd:COG4977   223 LEEPLSVDELARRAGMSPRTLERRFRAAtGTTPARYLQRLRLERARRLLETTDlSIEEIAAACGFGSASHFRRAFRRRFG 302

                          90
                  ....*....|.
gi 1734544588 225 NSPkrvsKEYR 235
Cdd:COG4977   303 VSP----SAYR 309
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
147-245 2.10e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 47.59  E-value: 2.10e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 147 LAHPWKLKDICDCLYISESLLKKKLKQeQT--TFSQILLDARMQHAKNLIRV-EGSVNKIAEQCGYASTSYFIYAFRKHF 223
Cdd:PRK13501  189 LGAYFDMADFCHKNQLVERSLKQLFRQ-QTgmSISHYLRQIRLCHAKCLLRGsEHRISDIAARCGFEDSNYFSAVFTREA 267

                          90       100
                  ....*....|....*....|...
gi 1734544588 224 GNSPKRVSKEY-RCQSHTGMNTG 245
Cdd:PRK13501  268 GMTPRDYRQRFiRSPVLPAKNEP 290
ftrA PRK09393
transcriptional activator FtrA; Provisional
 182-227 9.10e-06

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 46.11  E-value: 9.10e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1734544588 182 LLDARMQHAKNLIRVEG-SVNKIAEQCGYASTSYFIYAFRKHFGNSP 227
Cdd:PRK09393  267 LLRERLARARDLLESSAlSIDQIAERAGFGSEESLRHHFRRRAATSP 313
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
138-229 3.22e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 44.27  E-value: 3.22e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 138 KVRNIVNMKLAHPWKLKDICDCLYISESLLKKKLKQEQ-TTFSQILLDARMQHAKNLIRVEG-SVNKIAEQCGYASTSYF 215
Cdd:PRK13502  180 KLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTgMTINQYLRQVRICHAQYLLQHSPlMISEISMQCGFEDSNYF 259

                          90
                  ....*....|....
gi 1734544588 216 IYAFRKHFGNSPKR 229
Cdd:PRK13502  260 SVVFTRETGMTPSQ 273
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
147-229 3.29e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 44.32  E-value: 3.29e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 147 LAHPWKLKDICDCLYISESLLKKKLKQEQ-TTFSQILLDARMQHAKNLIR-VEGSVNKIAEQCGYASTSYFIYAFRKHFG 224
Cdd:PRK13500  219 LKSPFALDKFCDEASCSERVLRQQFRQQTgMTINQYLRQVRVCHAQYLLQhSRLLISDISTECGFEDSNYFSVVFTRETG 298


                  ....*
gi 1734544588 225 NSPKR 229
Cdd:PRK13500  299 MTPSQ 303
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
167-228 4.97e-04

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 40.43  E-value: 4.97e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1734544588 167 LKKKLKQeQT--TFSQILLDARMQHAKNLIR-VEGSVNKIAEQCGYASTSYFIYAFRKHFGNSPK 228
Cdd:PRK13503  204 LHRQLKQ-QTglTPQRYLNRLRLLKARHLLRhSDASVTDIAYRCGFGDSNHFSTLFRREFSWSPR 267
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 199-235 6.14e-04

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 36.75  E-value: 6.14e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1734544588 199 SVNKIAEQCGYaSTSYFIYAFRKHFGNSPkrvsKEYR 235
Cdd:pfam00165  10 TIADIADELGF-SRSYFSRLFKKYTGVTP----SQYR 41
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
141-235 8.77e-04

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 39.96  E-value: 8.77e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1734544588 141 NIVNMKLAHPWKLKDICDCLYISESLLKKKLKQEqtTFSQILL---DARMQHAKNLIRVEG-SVNKIAEQCGYASTSYFI 216
Cdd:PRK10572  190 QYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQ--LGISVLRwreDQRISRAKLLLQTTRmPIATIGRNVGYDDQLYFS 267

                          90
                  ....*....|....*....
gi 1734544588 217 YAFRKHFGNSPkrvsKEYR 235
Cdd:PRK10572  268 RVFKKCTGASP----SEFR 282
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
164-237 1.50e-03

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 38.99  E-value: 1.50e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1734544588 164 ESLLKKKLKQEQTTFSQILLDARMQHAKNLIRVEGSVNKIAEQCGYaSTSYFIYAFRKHFGNSPKRVSKEYRCQ 237
Cdd:COG2207   135 ELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGL-SPRTLSRLFKEETGTSPKQYLRELRLE 207
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 147-182 3.22e-03

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 34.44  E-value: 3.22e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1734544588 147 LAHPWKLKDICDCLYISESLLKKKLKQE-QTTFSQIL 182
Cdd:pfam00165   5 LSTNLTIADIADELGFSRSYFSRLFKKYtGVTPSQYR 41
 
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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