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Conserved domains on  [gi|16131388|ref|NP_417973|]
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DNA-binding transcriptional dual regulator GadX [Escherichia coli str. K-12 substr. MG1655]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 11484544)

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
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 1-274 0e+00

DNA-binding transcriptional regulator GadX; Provisional


:

Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 520.64  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388    1 MQSLHGNCLIAYARHKYILTMVNGEYRYFNGGDLVFADASQIRVDKCVENFVFVSRDTLSLFLPMLKEEALNLHAHKKVS 80
Cdd:PRK09978   1 MQSLHGNCLIAYARHKYILTMVNGEYRYFNGGDLVFADASQIRVDKCVENFVLVSRDTLSLFLPMLKEEALNLHAHKKVS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388   81 SLLVHHCSRDIPVFQEVAQLSQNKNLRYAEMLRKRALIFALLSVFLEDEHFIPLLLNVLQPNMRTRVCTVINNNIAHEWT 160
Cdd:PRK09978  81 SLLVHHCSRDIPVFQEVAQLSQNKNLRYAEMLRKRALIFALLSVFLEDEHFIPLLLNVLQPNMRTRVCTVINNNIAHEWT 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388  161 LARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQ 240
Cdd:PRK09978 161 LARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQ 240

                        250       260       270
                 ....*....|....*....|....*....|....
gi 16131388  241 ERSAQRLSNRDSAASIVAQGNFYGTDRSAEGIRL 274
Cdd:PRK09978 241 ERSAQGLPNRDSAASIVAQGNFYGTDRSAEGIRL 274
 
Name Accession Description Interval E-value
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 1-274 0e+00

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 520.64  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388    1 MQSLHGNCLIAYARHKYILTMVNGEYRYFNGGDLVFADASQIRVDKCVENFVFVSRDTLSLFLPMLKEEALNLHAHKKVS 80
Cdd:PRK09978   1 MQSLHGNCLIAYARHKYILTMVNGEYRYFNGGDLVFADASQIRVDKCVENFVLVSRDTLSLFLPMLKEEALNLHAHKKVS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388   81 SLLVHHCSRDIPVFQEVAQLSQNKNLRYAEMLRKRALIFALLSVFLEDEHFIPLLLNVLQPNMRTRVCTVINNNIAHEWT 160
Cdd:PRK09978  81 SLLVHHCSRDIPVFQEVAQLSQNKNLRYAEMLRKRALIFALLSVFLEDEHFIPLLLNVLQPNMRTRVCTVINNNIAHEWT 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388  161 LARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQ 240
Cdd:PRK09978 161 LARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQ 240

                        250       260       270
                 ....*....|....*....|....*....|....
gi 16131388  241 ERSAQRLSNRDSAASIVAQGNFYGTDRSAEGIRL 274
Cdd:PRK09978 241 ERSAQGLPNRDSAASIVAQGNFYGTDRSAEGIRL 274
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
158-239 8.71e-27

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 99.55  E-value: 8.71e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388    158 EWTLARIASELLMSPSLLKKKLREEE-TSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTP 236
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETgTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 16131388    237 TEY 239
Cdd:smart00342  81 SEY 83
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
160-246 1.69e-17

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 79.82  E-value: 1.69e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388 160 TLARIASELLMSPSLLKKKLREE-ETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTE 238
Cdd:COG2207 170 TLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                ....*...
gi 16131388 239 YQERSAQR 246
Cdd:COG2207 250 YRKRLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
164-242 2.20e-16

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 72.24  E-value: 2.20e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388   164 IASELLMSPSLLKKKLREEE-TSYSQLLTECRMQRALQLIV-IHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQE 241
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELgLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 16131388   242 R 242
Cdd:pfam12833  81 R 81
 
Name Accession Description Interval E-value
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 1-274 0e+00

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 520.64  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388    1 MQSLHGNCLIAYARHKYILTMVNGEYRYFNGGDLVFADASQIRVDKCVENFVFVSRDTLSLFLPMLKEEALNLHAHKKVS 80
Cdd:PRK09978   1 MQSLHGNCLIAYARHKYILTMVNGEYRYFNGGDLVFADASQIRVDKCVENFVLVSRDTLSLFLPMLKEEALNLHAHKKVS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388   81 SLLVHHCSRDIPVFQEVAQLSQNKNLRYAEMLRKRALIFALLSVFLEDEHFIPLLLNVLQPNMRTRVCTVINNNIAHEWT 160
Cdd:PRK09978  81 SLLVHHCSRDIPVFQEVAQLSQNKNLRYAEMLRKRALIFALLSVFLEDEHFIPLLLNVLQPNMRTRVCTVINNNIAHEWT 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388  161 LARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQ 240
Cdd:PRK09978 161 LARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQ 240

                        250       260       270
                 ....*....|....*....|....*....|....
gi 16131388  241 ERSAQRLSNRDSAASIVAQGNFYGTDRSAEGIRL 274
Cdd:PRK09978 241 ERSAQGLPNRDSAASIVAQGNFYGTDRSAEGIRL 274
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
158-239 8.71e-27

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 99.55  E-value: 8.71e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388    158 EWTLARIASELLMSPSLLKKKLREEE-TSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTP 236
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETgTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 16131388    237 TEY 239
Cdd:smart00342  81 SEY 83
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 117-256 2.43e-24

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 98.23  E-value: 2.43e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388  117 LIFALLSVFLEDEHFIPLLLN-VLQPNMRTRvcTVINNNIAHEWTLARIASELLMSPSLLKKKLREEETSYSQLLTECRM 195
Cdd:PRK09940 110 LLFSCLSIFAACKGFITLLTNgVLSVSGKVR--NIVNMKLAHPWKLKDICDCLYISESLLKKKLKQEQTTFSQILLDARM 187

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 16131388  196 QRALQLIVIHGfSIKRVAVSCGYHSVSYFIYVFRNYYGMTP----TEY--QERSAQRLSNRDSAASI 256
Cdd:PRK09940 188 QHAKNLIRVEG-SVNKIAEQCGYASTSYFIYAFRKHFGNSPkrvsKEYrcQRHTGMNTGNTMSALAI 253
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 102-239 6.51e-24

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 98.14  E-value: 6.51e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388  102 QNKNLRYAEMLRKRALIFaLLSVFLEDEHFIPLLLNVLQPNMRTRVCTVINNNIAHEWTLARIASELLMSPSLLKKKLRE 181
Cdd:PRK15185 167 NNKSCIENEELIPYFLLF-LLTAFLRLPESYEIILSSAQITLKERVYNIISSSPSRQWKLTDVADHIFMSTSTLKRKLAE 245

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 16131388  182 EETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEY 239
Cdd:PRK15185 246 EGTSFSDIYLSARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFKKYFKTTPSTF 303
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 9-239 1.03e-22

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 94.75  E-value: 1.03e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388    9 LIAYARHKYILTMVNGEYRYFNGGDLVFADASQ---IRVDKCVE--NFVFVSRDTLSLflpmlkEEALN--LHAHKKVSS 81
Cdd:PRK15186  41 LIKLTTGKISITTSSGEYITASGPMLIFLAKDQtihITMEETHEqlNYNLIELDSASI------KNAYNffLYEHADFSA 114

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388   82 LLVHHCSRDI--PVFQEVAQL-----SQNKNLRYAEMlRKRALIFALLSVFLEDEHFIPLLLNVLQPNMRTRVCTVINNN 154
Cdd:PRK15186 115 PLTKPTTKHLlaPIETGVARVfnllhSSNKSQKLSQD-KKEYLIRFLLSEFIYEPEAFALFRELSQNTLAENIYNIIISD 193

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388  155 IAHEWTLARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGM 234
Cdd:PRK15186 194 ISRKWALKDISDSLYMSCSTLKRKLKQENTSFSEVYLNARMNKATKLLRNSEYNITRVAYMCGYDSASYFTCVFKKHFKT 273


                 ....*
gi 16131388  235 TPTEY 239
Cdd:PRK15186 274 TPSEF 278
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
160-246 1.69e-17

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 79.82  E-value: 1.69e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388 160 TLARIASELLMSPSLLKKKLREE-ETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTE 238
Cdd:COG2207 170 TLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                ....*...
gi 16131388 239 YQERSAQR 246
Cdd:COG2207 250 YRKRLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
164-242 2.20e-16

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 72.24  E-value: 2.20e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388   164 IASELLMSPSLLKKKLREEE-TSYSQLLTECRMQRALQLIV-IHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQE 241
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELgLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 16131388   242 R 242
Cdd:pfam12833  81 R 81
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
 121-239 2.87e-16

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 77.00  E-value: 2.87e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388  121 LLSVFLEDEHFIPLLLNVLQPNMRTRVCTVINNNIAHEWTLARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQ 200
Cdd:PRK15044 171 LISAFVRKPGGFDFLERAIKITTKEKVYNIIISDLTRKWSQAEVAGKLFMSVSSLKRKLAAEEVSFSKIYLDARMNQAIK 250

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 16131388  201 LIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEY 239
Cdd:PRK15044 251 LLRMGAGNISQVATMCGYDTPSYFIAIFKRHFKITPLSF 289
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 145-246 1.06e-13

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: 70.08  E-value: 1.06e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388 145 TRVCTVINNNIAHEWTLARIASELLMSPSLLKKKLREE-ETSYSQLLTECRMQRALQLIViHGFSIKRVAVSCGYHSVSY 223
Cdd:COG2169  87 ARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHtGVTPKAYARARRLLRARQLLQ-TGLSVTDAAYAAGFGSLSR 165

                        90       100
                ....*....|....*....|...
gi 16131388 224 FIYVFRNYYGMTPTEYQERSAQR 246
Cdd:COG2169 166 FYEAFKKLLGMTPSAYRRGGAGA 188
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
94-244 3.14e-12

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 65.38  E-value: 3.14e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388   94 FQEVAQLSQNKNlRYAEMLRKRALIFALLSVFLEDEhfiplllNVLQPNMRTRV---CTVINNNIAHEWTLARIASELLM 170
Cdd:PRK10572 140 FGQIEQAGQSEG-RYSELLAMNLLERLLLRCMEAIP-------ESLHPPMDPRVreaCQYISDHLASEFDIESVAQHVCL 211

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 16131388  171 SPSLLKKKLREE-ETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQERSA 244
Cdd:PRK10572 212 SPSRLAHLFRQQlGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRARCE 286
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 146-246 1.94e-11

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: 63.25  E-value: 1.94e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388 146 RVCTVINNNIAHEWTLARIASELLMSPSLLKKKLREEeTSYS--QLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSY 223
Cdd:COG4977 214 RAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAA-TGTTpaRYLQRLRLERARRLLETTDLSIEEIAAACGFGSASH 292

                        90       100
                ....*....|....*....|...
gi 16131388 224 FIYVFRNYYGMTPTEYQERSAQR 246
Cdd:COG4977 293 FRRAFRRRFGVSPSAYRRRFRAR 315
ftrA PRK09393
transcriptional activator FtrA; Provisional
 151-244 2.09e-09

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 57.28  E-value: 2.09e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388  151 INNNIAHEWTLARIASELLMSPSLLKKKLREE--ETSYSQLLTEcRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVF 228
Cdd:PRK09393 227 MRAHLAEPHTVASLAARAAMSPRTFLRRFEAAtgMTPAEWLLRE-RLARARDLLESSALSIDQIAERAGFGSEESLRHHF 305

                         90
                 ....*....|....*.
gi 16131388  229 RNYYGMTPTEYQERSA 244
Cdd:PRK09393 306 RRRAATSPAAYRKRFG 321
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 205-239 3.16e-07

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: 45.99  E-value: 3.16e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 16131388   205 HGFSIKRVAVSCGYhSVSYFIYVFRNYYGMTPTEY 239
Cdd:pfam00165   7 TNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQY 40
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
95-246 2.12e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 48.13  E-value: 2.12e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388   95 QEVAQLSQNKNLRYAEMLRKRALIFALLSVFLEDEHFIPLLLNVL-QPNMRTRVCTVINNNIAHEWTLARIASELLMSPS 173
Cdd:PRK13502 128 QVINQLEHESNGRDPLANEMAELLFGQLVMTLKRHRYATDDLPATsRETLLDKLITALANSLECPFALDAFCQQEQCSER 207

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 16131388  174 LLKKKLREEE-TSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQERSAQR 246
Cdd:PRK13502 208 VLRQQFRAQTgMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWRHLSNQS 281
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
64-246 1.74e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 42.40  E-value: 1.74e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388   64 PMLKEEALNLHAHKKVSSLLVHHCSRDIPVFQEVAQLsqnknlryaemlrkralIFALLSVFLEDEHFI-----PLLLNV 138
Cdd:PRK13500 144 PHWRLGSVGMAQARQVIGQLEHESSQHVPFANEMAEL-----------------LFGQLVMLLNRHRYTsdslpPTSSET 206

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388  139 LQPNMRTRVCTVINNNIAhewtLARIASELLMSPSLLKKKLREEE-TSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCG 217
Cdd:PRK13500 207 LLDKLITRLAASLKSPFA----LDKFCDEASCSERVLRQQFRQQTgMTINQYLRQVRVCHAQYLLQHSRLLISDISTECG 282

                        170       180
                 ....*....|....*....|....*....
gi 16131388  218 YHSVSYFIYVFRNYYGMTPTEYQERSAQR 246
Cdd:PRK13500 283 FEDSNYFSVVFTRETGMTPSQWRHLNSQK 311
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
151-246 7.52e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 40.27  E-value: 7.52e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131388  151 INNNIAHEWTLARIASELLMSPSLLKKKLREEE-TSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFR 229
Cdd:PRK13501 185 LQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTgMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFT 264

                         90
                 ....*....|....*..
gi 16131388  230 NYYGMTPTEYQERSAQR 246
Cdd:PRK13501 265 REAGMTPRDYRQRFIRS 281
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 151-191 9.15e-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: 36.36  E-value: 9.15e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 16131388   151 INNNIAHEWTLARIASELLMSPSLLKKKLREE-ETSYSQLLT 191
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYtGVTPSQYRH 42
 
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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