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Conserved domains on  [gi|1326125729|ref|WP_101954750|]
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AraC family transcriptional regulator [Falseniella ignava]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11454391)

helix-turn-helix (HTH) domain-containing protein with an AraC family HTH domain, binds DNA and may function as a transcriptional regulator

CATH:  1.10.10.60
Gene Ontology:  GO:0003700|GO:0003677
PubMed:  10473770|15808743|8831795

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
159-321 1.66e-20

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.07  E-value: 1.66e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 159 AALIIHSRHEIDHVISELYRVDSRIRLSYSIIKTIELLLFLNLFESSDTFKLTSFSEPVYKATVESYKTILNNPFERYSI 238
Cdd:COG2207    92 VGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTL 171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 239 SDLSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLLIHKPlMSIGEISDLSGYLNPSKFSESFKKHFGQTPQEY 318
Cdd:COG2207   172 EELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETD-LSISEIAYELGFSSQSHFSRAFKKRFGVTPSEY 250


                  ...
gi 1326125729 319 RKK 321
Cdd:COG2207   251 RKR 253
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
159-321 1.66e-20

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.07  E-value: 1.66e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 159 AALIIHSRHEIDHVISELYRVDSRIRLSYSIIKTIELLLFLNLFESSDTFKLTSFSEPVYKATVESYKTILNNPFERYSI 238
Cdd:COG2207    92 VGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTL 171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 239 SDLSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLLIHKPlMSIGEISDLSGYLNPSKFSESFKKHFGQTPQEY 318
Cdd:COG2207   172 EELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETD-LSISEIAYELGFSSQSHFSRAFKKRFGVTPSEY 250


                  ...
gi 1326125729 319 RKK 321
Cdd:COG2207   251 RKR 253
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
235-319 3.20e-18

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 77.98  E-value: 3.20e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729  235 RYSISDLSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLLIHkPLMSIGEISDLSGYLNPSKFSESFKKHFGQT 314
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRD-TDLSVTEIALRVGFSSQSYFSRAFKKLFGVT 79


                   ....*
gi 1326125729  315 PQEYR 319
Cdd:smart00342  80 PSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
241-321 4.97e-17

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 74.55  E-value: 4.97e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 241 LSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLLIHKPLMSIGEISDLSGYLNPSKFSESFKKHFGQTPQEYRK 320
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 1326125729 321 K 321
Cdd:pfam12833  81 R 81
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
237-319 5.06e-08

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 50.31  E-value: 5.06e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 237 SISDLSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLL--IHKPLMSIGeiSDLsGYLNPSKFSESFKKHFGQT 314
Cdd:PRK10219   23 NIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELrtTERPIFDIA--MDL-GYVSQQTFSRVFRRQFDRT 99


                  ....*
gi 1326125729 315 PQEYR 319
Cdd:PRK10219  100 PSDYR 104
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
159-321 1.66e-20

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.07  E-value: 1.66e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 159 AALIIHSRHEIDHVISELYRVDSRIRLSYSIIKTIELLLFLNLFESSDTFKLTSFSEPVYKATVESYKTILNNPFERYSI 238
Cdd:COG2207    92 VGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTL 171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 239 SDLSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLLIHKPlMSIGEISDLSGYLNPSKFSESFKKHFGQTPQEY 318
Cdd:COG2207   172 EELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETD-LSISEIAYELGFSSQSHFSRAFKKRFGVTPSEY 250


                  ...
gi 1326125729 319 RKK 321
Cdd:COG2207   251 RKR 253
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
235-319 3.20e-18

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 77.98  E-value: 3.20e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729  235 RYSISDLSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLLIHkPLMSIGEISDLSGYLNPSKFSESFKKHFGQT 314
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRD-TDLSVTEIALRVGFSSQSYFSRAFKKLFGVT 79


                   ....*
gi 1326125729  315 PQEYR 319
Cdd:smart00342  80 PSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
241-321 4.97e-17

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 74.55  E-value: 4.97e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 241 LSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLLIHKPLMSIGEISDLSGYLNPSKFSESFKKHFGQTPQEYRK 320
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 1326125729 321 K 321
Cdd:pfam12833  81 R 81
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 228-321 8.01e-14

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: 70.96  E-value: 8.01e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 228 ILNNPFERYSISDLSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLLIHKPlMSIGEISDLSGYLNPSKFSESF 307
Cdd:COG4977   219 MEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTD-LSIEEIAAACGFGSASHFRRAF 297

                          90
                  ....*....|....
gi 1326125729 308 KKHFGQTPQEYRKK 321
Cdd:COG4977   298 RRRFGVSPSAYRRR 311
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
237-319 5.06e-08

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 50.31  E-value: 5.06e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 237 SISDLSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLL--IHKPLMSIGeiSDLsGYLNPSKFSESFKKHFGQT 314
Cdd:PRK10219   23 NIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELrtTERPIFDIA--MDL-GYVSQQTFSRVFRRQFDRT 99


                  ....*
gi 1326125729 315 PQEYR 319
Cdd:PRK10219  100 PSDYR 104
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
228-322 2.37e-07

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 51.51  E-value: 2.37e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 228 ILNNPFERYSISDLSKKYAISESSLKRCFIYITGSSIGNFiRENCLEAAAKLLIHKPLMSIGEISDLSGYLNPSKFSESF 307
Cdd:PRK10572  192 ISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRW-REDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVF 270

                          90
                  ....*....|....*
gi 1326125729 308 KKHFGQTPQEYRKKS 322
Cdd:PRK10572  271 KKCTGASPSEFRARC 285
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
236-321 3.36e-07

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 51.06  E-value: 3.36e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 236 YSISDLSKKYAISESSLKRCFIYITGSSIGNFIRENCLeAAAKLLIHKPLMSIGEISDLSGYLNPSKFSESFKKHFGQTP 315
Cdd:PRK13501  193 FDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRL-CHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTP 271


                  ....*.
gi 1326125729 316 QEYRKK 321
Cdd:PRK13501  272 RDYRQR 277
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
227-322 4.85e-07

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 50.44  E-value: 4.85e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 227 TILNNPFER-YSISDLSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLLIHKPLMsIGEISDLSGYLNPSKFSE 305
Cdd:PRK13502  183 TALANSLECpFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLM-ISEISMQCGFEDSNYFSV 261

                          90
                  ....*....|....*..
gi 1326125729 306 SFKKHFGQTPQEYRKKS 322
Cdd:PRK13502  262 VFTRETGMTPSQWRHLS 278
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 241-322 4.82e-06

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 47.33  E-value: 4.82e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 241 LSKKYAISESSLKRCFIYiTGSSIGNFIRENCLEAAAKLLIHkPLM--SIGEISDLSGYLNPSKFSESFKKHFGQTPQEY 318
Cdd:PRK09685  220 IAGELGISVRSLYRLFAE-QGLVVAQYIRNRRLDRCADDLRP-AADdeKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEY 297


                  ....
gi 1326125729 319 RKKS 322
Cdd:PRK09685  298 RRKF 301
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 228-320 5.48e-06

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: 47.36  E-value: 5.48e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 228 ILNNPFERYSISDLSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLLihKPLMSIGEISDLSGYLNPSKFSESF 307
Cdd:COG2169    93 IEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLL--QTGLSVTDAAYAAGFGSLSRFYEAF 170

                          90
                  ....*....|...
gi 1326125729 308 KKHFGQTPQEYRK 320
Cdd:COG2169   171 KKLLGMTPSAYRR 183
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 286-320 1.40e-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: 38.67  E-value: 1.40e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1326125729 286 MSIGEISDLSGYlNPSKFSESFKKHFGQTPQEYRK 320
Cdd:pfam00165   9 LTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
237-322 1.66e-04

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 42.69  E-value: 1.66e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 237 SISDLSKKYAISESSLKRCFIYITGSSIGNFIRENCL-EAAAKL-LIHKPLMSIGeisdLSgYLNPSK--FSESFKKHFG 312
Cdd:PRK15121   23 SLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLsKAAVALrLTSRPILDIA----LQ-YRFDSQqtFTRAFKKQFA 97

                          90
                  ....*....|
gi 1326125729 313 QTPQEYRKKS 322
Cdd:PRK15121   98 QTPALYRRSP 107
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
237-319 4.37e-03

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 36.62  E-value: 4.37e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 237 SISDLSKKYAISESSLKRCFIYITGSSIGNFIRENCLEAAAKLL--IHKPLMSIGEisdLSGYLNPSKFSESFKKHFGQT 314
Cdd:PRK11511   27 SLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLkeSNEPILYLAE---RYGFESQQTLTRTFKNYFDVP 103


                  ....*
gi 1326125729 315 PQEYR 319
Cdd:PRK11511  104 PHKYR 108
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 228-322 4.47e-03

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 38.37  E-value: 4.47e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 228 ILNNPFERYSISDLSKKYAISESSLKRCfIYITGSSIGNFIRENCLEAAAKLL-IHKplMSIGEISDLSGYLNPSKFSES 306
Cdd:PRK09978  151 INNNIAHEWTLARIASELLMSPSLLKKK-LREEETSYSQLLTECRMQRALQLIvIHG--FSIKRVAVSCGYHSVSYFIYV 227

                          90
                  ....*....|....*.
gi 1326125729 307 FKKHFGQTPQEYRKKS 322
Cdd:PRK09978  228 FRNYYGMTPTEYQERS 243
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 225-318 7.28e-03

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 37.74  E-value: 7.28e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1326125729 225 YKTILNNPFERYSISDLSKKYAISESSLKRCfIYITGSSIGNFIRENCLEAAAKLLIHKPlMSIGEISDLSGYLNPSKFS 304
Cdd:PRK15186  187 YNIIISDISRKWALKDISDSLYMSCSTLKRK-LKQENTSFSEVYLNARMNKATKLLRNSE-YNITRVAYMCGYDSASYFT 264

                          90
                  ....*....|....
gi 1326125729 305 ESFKKHFGQTPQEY 318
Cdd:PRK15186  265 CVFKKHFKTTPSEF 278
 
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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