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Conserved domains on  [gi|446814552|ref|WP_000891808|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Salmonella]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 12820790)

AraC family transcriptional regulator containing an AraC family helix-turn-helix (HTH) domain, controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence

CATH:  1.10.10.10
Gene Ontology:  GO:0003700|GO:0006355|GO:0003677
PubMed:  10473770|15808743|9409145|33837749|11282467

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
GlxA super family cl34854
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 166-268 4.25e-22

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


The actual alignment was detected with superfamily member COG4977:

Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 93.30  E-value: 4.25e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 166 KVQQLIRTHYHLPLSSSVLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYF 245
Cdd:COG4977  214 RAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHF 293

                         90       100
                 ....*....|....*....|...
gi 446814552 246 RQIFRKHTGLTPTAWKRRYSKEH 268
Cdd:COG4977  294 RRAFRRRFGVSPSAYRRRFRARA 316
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
23-267 1.40e-21

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 90.99  E-value: 1.40e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552  23 IGRHPARRLQSWEIIFVEKGCLKIQEEECVFCVEAGESLLLWPHRRHIGVEEFPADLKFYWLHFEVKAPDSDPRWLTHLS 102
Cdd:COG2207   13 LLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLV 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 103 VPQHTQVADPQALIALFRQFMNEQEKHQRSPALEFIVLLILQQLTVDARQNENAEAAGVSLAWKVQQLIRTHYHLPLSSS 182
Cdd:COG2207   93 GLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLE 172

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 183 VLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFRQIFRKHTGLTPTAWKR 262
Cdd:COG2207  173 ELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRK 252


                 ....*
gi 446814552 263 RYSKE 267
Cdd:COG2207  253 RLRAR 257
 
Name Accession Description Interval E-value
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 166-268 4.25e-22

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: 93.30  E-value: 4.25e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 166 KVQQLIRTHYHLPLSSSVLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYF 245
Cdd:COG4977  214 RAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHF 293

                         90       100
                 ....*....|....*....|...
gi 446814552 246 RQIFRKHTGLTPTAWKRRYSKEH 268
Cdd:COG4977  294 RRAFRRRFGVSPSAYRRRFRARA 316
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
23-267 1.40e-21

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 90.99  E-value: 1.40e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552  23 IGRHPARRLQSWEIIFVEKGCLKIQEEECVFCVEAGESLLLWPHRRHIGVEEFPADLKFYWLHFEVKAPDSDPRWLTHLS 102
Cdd:COG2207   13 LLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLV 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 103 VPQHTQVADPQALIALFRQFMNEQEKHQRSPALEFIVLLILQQLTVDARQNENAEAAGVSLAWKVQQLIRTHYHLPLSSS 182
Cdd:COG2207   93 GLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLE 172

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 183 VLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFRQIFRKHTGLTPTAWKR 262
Cdd:COG2207  173 ELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRK 252


                 ....*
gi 446814552 263 RYSKE 267
Cdd:COG2207  253 RLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
184-263 7.79e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 83.79  E-value: 7.79e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552  184 LAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISD-ARSLKEVAERCGFNDVGYFRQIFRKHTGLTPTAWKR 262
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 446814552  263 R 263
Cdd:pfam12833  81 R 81
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
178-261 2.17e-19

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 80.29  E-value: 2.17e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552   178 PLSSSVLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFRQIFRKHTGLTP 257
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 446814552   258 TAWK 261
Cdd:smart00342  81 SEYR 84
ftrA PRK09393
transcriptional activator FtrA; Provisional
 171-265 1.08e-09

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 58.05  E-value: 1.08e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 171 IRTHYHLPLSSSVLAKElhcnVDYLGRVYRRVFH----LTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFR 246
Cdd:PRK09393 227 MRAHLAEPHTVASLAAR----AAMSPRTFLRRFEaatgMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEESLR 302

                         90
                 ....*....|....*....
gi 446814552 247 QIFRKHTGLTPTAWKRRYS 265
Cdd:PRK09393 303 HHFRRRAATSPAAYRKRFG 321
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
41-268 6.12e-07

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 49.59  E-value: 6.12e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552  41 KGCLKIQEEECVFCVEAGEsLLLWPhrrhigveefPADLKFYWlhfevKAPDSD----------PR-----WLTHLSVPQ 105
Cdd:PRK10572  57 RGQGVIFNGGRAFVCRPGD-LLLFP----------PGEIHHYG-----RHPDSDewyhqwvyfrPRaywadWLNWPSIFA 120

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 106 HT---QVADPqALIALFRQFMNEQEKHQRSP----------ALEFIVLL------ILQQLTVDARQNEnaeaagvslawk 166
Cdd:PRK10572 121 GVgrlRIPDE-ALQPEFSDLFGQIEQAGQSEgrysellamnLLERLLLRcmeaipESLHPPMDPRVRE------------ 187

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 167 VQQLIRTHYHLPLSSSVLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFR 246
Cdd:PRK10572 188 ACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFS 267

                        250       260
                 ....*....|....*....|..
gi 446814552 247 QIFRKHTGLTPTAWKRRYSKEH 268
Cdd:PRK10572 268 RVFKKCTGASPSEFRARCEEKN 289
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 25-136 4.37e-04

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 39.34  E-value: 4.37e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552   25 RHPARRLQSWEIIFVEKGCLKIQEEECVFCVEAGESLLLWPHRRHIGVEEFPADLKFYWLHFEVKAPDSDPRWLTHLSVP 104
Cdd:pfam02311  15 SFPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPELLERILADISILAGG 94

                          90       100       110
                  ....*....|....*....|....*....|..
gi 446814552  105 QHTQVADPQaLIALFRQFMNEQEKHQRSPALE 136
Cdd:pfam02311  95 PLPLLRDPE-LAALLRALFRLLEEAGRSDDLL 125
 
Name Accession Description Interval E-value
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 166-268 4.25e-22

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: 93.30  E-value: 4.25e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 166 KVQQLIRTHYHLPLSSSVLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYF 245
Cdd:COG4977  214 RAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHF 293

                         90       100
                 ....*....|....*....|...
gi 446814552 246 RQIFRKHTGLTPTAWKRRYSKEH 268
Cdd:COG4977  294 RRAFRRRFGVSPSAYRRRFRARA 316
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
23-267 1.40e-21

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 90.99  E-value: 1.40e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552  23 IGRHPARRLQSWEIIFVEKGCLKIQEEECVFCVEAGESLLLWPHRRHIGVEEFPADLKFYWLHFEVKAPDSDPRWLTHLS 102
Cdd:COG2207   13 LLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLV 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 103 VPQHTQVADPQALIALFRQFMNEQEKHQRSPALEFIVLLILQQLTVDARQNENAEAAGVSLAWKVQQLIRTHYHLPLSSS 182
Cdd:COG2207   93 GLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLE 172

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 183 VLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFRQIFRKHTGLTPTAWKR 262
Cdd:COG2207  173 ELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRK 252


                 ....*
gi 446814552 263 RYSKE 267
Cdd:COG2207  253 RLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
184-263 7.79e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 83.79  E-value: 7.79e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552  184 LAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISD-ARSLKEVAERCGFNDVGYFRQIFRKHTGLTPTAWKR 262
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 446814552  263 R 263
Cdd:pfam12833  81 R 81
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
178-261 2.17e-19

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 80.29  E-value: 2.17e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552   178 PLSSSVLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFRQIFRKHTGLTP 257
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 446814552   258 TAWK 261
Cdd:smart00342  81 SEYR 84
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 169-263 4.02e-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: 68.16  E-value: 4.02e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 169 QLIRTHYHLPLSSSVLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAeKLLISDARSLKEVAERCGFNDVGYFRQI 248
Cdd:COG2169   91 RLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRA-RQLLQTGLSVTDAAYAAGFGSLSRFYEA 169

                         90
                 ....*....|....*
gi 446814552 249 FRKHTGLTPTAWKRR 263
Cdd:COG2169  170 FKKLLGMTPSAYRRG 184
ftrA PRK09393
transcriptional activator FtrA; Provisional
 171-265 1.08e-09

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 58.05  E-value: 1.08e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 171 IRTHYHLPLSSSVLAKElhcnVDYLGRVYRRVFH----LTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFR 246
Cdd:PRK09393 227 MRAHLAEPHTVASLAAR----AAMSPRTFLRRFEaatgMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEESLR 302

                         90
                 ....*....|....*....
gi 446814552 247 QIFRKHTGLTPTAWKRRYS 265
Cdd:PRK09393 303 HHFRRRAATSPAAYRKRFG 321
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 170-270 1.90e-09

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 56.86  E-value: 1.90e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 170 LIRTHYHLPLSSSVLAKELhcnvdylgRVYRRVFHLTLTEAihrqRVREAEKLLISDARSLKEVAERCGFNDVGYFRQIF 249
Cdd:PRK09978 161 LARIASELLMSPSLLKKKL--------REEETSYSQLLTEC----RMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVF 228

                         90       100
                 ....*....|....*....|.
gi 446814552 250 RKHTGLTPTAWKRRYSKEHVN 270
Cdd:PRK09978 229 RNYYGMTPTEYQERSAQGLPN 249
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
195-264 1.60e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 54.53  E-value: 1.60e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 195 LGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFRQIFRKHTGLTPTAWKRRY 264
Cdd:PRK13501 209 LKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQRF 278
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
120-261 3.68e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 53.13  E-value: 3.68e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 120 RQFMN--EQEKHQRSPALEFIVLLILQQLTVDARQNENAE-----AAGVSLAWKVQQLIRTHYHLPLSSSVLAKELHCNV 192
Cdd:PRK13502 127 RQVINqlEHESNGRDPLANEMAELLFGQLVMTLKRHRYATddlpaTSRETLLDKLITALANSLECPFALDAFCQQEQCSE 206

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446814552 193 DYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFRQIFRKHTGLTPTAWK 261
Cdd:PRK13502 207 RVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWR 275
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
178-271 2.67e-07

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 50.87  E-value: 2.67e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 178 PLSSSVLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFRQIFRKHTGLTP 257
Cdd:PRK13500 222 PFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDSNYFSVVFTRETGMTP 301

                         90
                 ....*....|....
gi 446814552 258 TAWKrryskeHVNS 271
Cdd:PRK13500 302 SQWR------HLNS 309
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
41-268 6.12e-07

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 49.59  E-value: 6.12e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552  41 KGCLKIQEEECVFCVEAGEsLLLWPhrrhigveefPADLKFYWlhfevKAPDSD----------PR-----WLTHLSVPQ 105
Cdd:PRK10572  57 RGQGVIFNGGRAFVCRPGD-LLLFP----------PGEIHHYG-----RHPDSDewyhqwvyfrPRaywadWLNWPSIFA 120

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 106 HT---QVADPqALIALFRQFMNEQEKHQRSP----------ALEFIVLL------ILQQLTVDARQNEnaeaagvslawk 166
Cdd:PRK10572 121 GVgrlRIPDE-ALQPEFSDLFGQIEQAGQSEgrysellamnLLERLLLRcmeaipESLHPPMDPRVRE------------ 187

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 167 VQQLIRTHYHLPLSSSVLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFR 246
Cdd:PRK10572 188 ACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFS 267

                        250       260
                 ....*....|....*....|..
gi 446814552 247 QIFRKHTGLTPTAWKRRYSKEH 268
Cdd:PRK10572 268 RVFKKCTGASPSEFRARCEEKN 289
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
169-263 1.01e-06

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 46.46  E-value: 1.01e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 169 QLIRTHYHLPLSSSVLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFRQI 248
Cdd:PRK10219  12 AWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRV 91

                         90
                 ....*....|....*
gi 446814552 249 FRKHTGLTPTAWKRR 263
Cdd:PRK10219  92 FRRQFDRTPSDYRHR 106
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 81-258 2.53e-05

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 44.67  E-value: 2.53e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552  81 FYWLHFEVKAPDSDPRwLTHLSVPQHTQVAdpqalialfRQF--MNEQEKHQRSP--ALEFIVLLILQQLTVDAR----- 151
Cdd:PRK15186 105 FLYEHADFSAPLTKPT-TKHLLAPIETGVA---------RVFnlLHSSNKSQKLSqdKKEYLIRFLLSEFIYEPEafalf 174

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 152 ----QNENAE------AAGVSLAWKVQQLIRTHYhlpLSSSVLAKELhcnvdylgrvyrRVFHLTLTEAIHRQRVREAEK 221
Cdd:PRK15186 175 relsQNTLAEniyniiISDISRKWALKDISDSLY---MSCSTLKRKL------------KQENTSFSEVYLNARMNKATK 239

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 446814552 222 LLISDARSLKEVAERCGFNDVGYFRQIFRKHTGLTPT 258
Cdd:PRK15186 240 LLRNSEYNITRVAYMCGYDSASYFTCVFKKHFKTTPS 276
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 224-260 5.90e-05

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: 39.44  E-value: 5.90e-05
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 446814552  224 ISDARSLKEVAERCGFnDVGYFRQIFRKHTGLTPTAW 260
Cdd:pfam00165   5 LSTNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQY 40
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 166-265 9.51e-05

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 43.10  E-value: 9.51e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 166 KVQQLIRTHYHLP-LSSSVLAKELHCNVDYLGRVYRRVfHLTLTEAIHRQRV-REAEKLL-ISDARSLKEVAERCGFNDV 242
Cdd:PRK09685 201 KVVALIDQSIQEEiLRPEWIAGELGISVRSLYRLFAEQ-GLVVAQYIRNRRLdRCADDLRpAADDEKITSIAYKWGFSDS 279

                         90       100
                 ....*....|....*....|...
gi 446814552 243 GYFRQIFRKHTGLTPTAWKRRYS 265
Cdd:PRK09685 280 SHFSTAFKQRFGVSPGEYRRKFR 302
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 193-263 1.10e-04

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 42.82  E-value: 1.10e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446814552 193 DYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFRQIFRKHTGLTPTAWKRR 263
Cdd:PRK10296 203 EYLTRATRRYYGKTPMQIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRKK 273
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 137-268 3.24e-04

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 41.22  E-value: 3.24e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 137 FIVLLILQQLTVDARQnENAEAAGVSLAWKVQQLIRTHYhlpLSSSVLAKELhcnvdylgrvyrRVFHLTLTEAIHRQRV 216
Cdd:PRK09940 124 FITLLTNGVLSVSGKV-RNIVNMKLAHPWKLKDICDCLY---ISESLLKKKL------------KQEQTTFSQILLDARM 187

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 446814552 217 REAEKLLISDArSLKEVAERCGFNDVGYFRQIFRKHTGLTPtawkRRYSKEH 268
Cdd:PRK09940 188 QHAKNLIRVEG-SVNKIAEQCGYASTSYFIYAFRKHFGNSP----KRVSKEY 234
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 25-136 4.37e-04

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 39.34  E-value: 4.37e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552   25 RHPARRLQSWEIIFVEKGCLKIQEEECVFCVEAGESLLLWPHRRHIGVEEFPADLKFYWLHFEVKAPDSDPRWLTHLSVP 104
Cdd:pfam02311  15 SFPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPELLERILADISILAGG 94

                          90       100       110
                  ....*....|....*....|....*....|..
gi 446814552  105 QHTQVADPQaLIALFRQFMNEQEKHQRSPALE 136
Cdd:pfam02311  95 PLPLLRDPE-LAALLRALFRLLEEAGRSDDLL 125
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
94-257 6.64e-04

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 40.43  E-value: 6.64e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552  94 DPRWLTHLSVPQHTQvadpQALIALFRQfMNEQEKHQRSPALEFIVLLILQQLtVDARQNENAEAAGVSLAwKVQQLIR- 172
Cdd:PRK13503 107 DGQYPSHWRVNQSVL----QQVRQLVAQ-MEQQEESNDLEAIASREILFMQLL-VLLRKSSLQENGENSDA-RLNQLLAw 179

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 173 --THYHLPLSSSVLAKELHCNVDYLGRVYRRVFHLTLTEAIHRQRVREAEKLLISDARSLKEVAERCGFNDVGYFRQIFR 250
Cdd:PRK13503 180 leDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFR 259


                 ....*..
gi 446814552 251 KHTGLTP 257
Cdd:PRK13503 260 REFSWSP 266
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 136-260 6.92e-04

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 40.36  E-value: 6.92e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 136 EFIVLLILQQLTVDARQNENAE----AAGVSLAWKVQQLIRT----HYHLP-------LSSSVLAKELHCNVDYLGRVYr 200
Cdd:PRK15185 176 ELIPYFLLFLLTAFLRLPESYEiilsSAQITLKERVYNIISSspsrQWKLTdvadhifMSTSTLKRKLAEEGTSFSDIY- 254

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446814552 201 rvfhltLTeaihrQRVREAEKLLISDARSLKEVAERCGFNDVGYFRQIFRKHTGLTPTAW 260
Cdd:PRK15185 255 ------LS-----ARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFKKYFKTTPSTF 303
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
 215-262 1.33e-03

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 39.63  E-value: 1.33e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 446814552 215 RVREAEKLLISDARSLKEVAERCGFNDVGYFRQIFRKHTGLTPTAWKR 262
Cdd:PRK15044 244 RMNQAIKLLRMGAGNISQVATMCGYDTPSYFIAIFKRHFKITPLSFMR 291
 
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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