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Conserved domains on  [gi|961661304|ref|WP_058374508|]
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AraC family transcriptional regulator [Pseudoalteromonas translucida]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 12071874)

AraC family transcriptional regulator containing an AraC family helix-turn-helix (HTH) DNA-binding domain, may regulate 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
AraC_N pfam06719
AraC-type transcriptional regulator N-terminus; This family represents the N-terminus of ...
 28-181 3.22e-44

AraC-type transcriptional regulator N-terminus; This family represents the N-terminus of bacterial ARAC-type transcriptional regulators. In E. coli, these regulate the L-arabinose operon through sensing the presence of arabinose, and when the sugar is present, transmitting this information from the arabinose-binding domains to the protein's DNA-binding domains. This family might represent the N-terminal arm of the protein, which binds to the C-terminal DNA binding domains to hold them in a state where the protein prefers to loop and remain non-activating. All family members contain the pfam00165 domain.


:

Pssm-ID: 461994  Cd Length: 152  Bit Score: 147.65  E-value: 3.22e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304   28 ITGVYFHRASKSSPRQPLIYNSGIIVVGQGHKVIHFTDHKIQYGAGDYLVLGVPVPLECEA-FTDGDLPVLGIAIDINPA 106
Cdd:pfam06719   2 IPGLTLFRTSEPTEPTPVVYEPSLCIVAQGAKRVHLGDETYEYDPGEYLVVSVDLPVTGEVtEASPEEPYLGLALDLDPA 81

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 961661304  107 LLHKLVNQMTehkqfALPPTCGQMSGVQSAKLDNAMERVTKRLLTVLNNPLEAQVFGEDIVKELVYRVLCGPQGH 181
Cdd:pfam06719  82 LLAELLLEAP-----PPGPPPRAGRGLAVSPLDEELLDAVLRLLRLLDTPEDIPVLAPLILREILYRLLTGPQGA 151
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
210-291 1.63e-26

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 99.55  E-value: 1.63e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304   210 PITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKVGYTSPSQFSREFKRHFNKTP 289
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ..
gi 961661304   290 KE 291
Cdd:smart00342  81 SE 82
 
Name Accession Description Interval E-value
AraC_N pfam06719
AraC-type transcriptional regulator N-terminus; This family represents the N-terminus of ...
 28-181 3.22e-44

AraC-type transcriptional regulator N-terminus; This family represents the N-terminus of bacterial ARAC-type transcriptional regulators. In E. coli, these regulate the L-arabinose operon through sensing the presence of arabinose, and when the sugar is present, transmitting this information from the arabinose-binding domains to the protein's DNA-binding domains. This family might represent the N-terminal arm of the protein, which binds to the C-terminal DNA binding domains to hold them in a state where the protein prefers to loop and remain non-activating. All family members contain the pfam00165 domain.


Pssm-ID: 461994  Cd Length: 152  Bit Score: 147.65  E-value: 3.22e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304   28 ITGVYFHRASKSSPRQPLIYNSGIIVVGQGHKVIHFTDHKIQYGAGDYLVLGVPVPLECEA-FTDGDLPVLGIAIDINPA 106
Cdd:pfam06719   2 IPGLTLFRTSEPTEPTPVVYEPSLCIVAQGAKRVHLGDETYEYDPGEYLVVSVDLPVTGEVtEASPEEPYLGLALDLDPA 81

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 961661304  107 LLHKLVNQMTehkqfALPPTCGQMSGVQSAKLDNAMERVTKRLLTVLNNPLEAQVFGEDIVKELVYRVLCGPQGH 181
Cdd:pfam06719  82 LLAELLLEAP-----PPGPPPRAGRGLAVSPLDEELLDAVLRLLRLLDTPEDIPVLAPLILREILYRLLTGPQGA 151
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
210-291 1.63e-26

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 99.55  E-value: 1.63e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304   210 PITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKVGYTSPSQFSREFKRHFNKTP 289
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ..
gi 961661304   290 KE 291
Cdd:smart00342  81 SE 82
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 186-292 7.23e-25

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: 101.39  E-value: 7.23e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 186 LAMHDGHYARIARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEA 265
Cdd:COG4977  202 LVPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEI 281

                         90       100
                 ....*....|....*....|....*..
gi 961661304 266 ALKVGYTSPSQFSREFKRHFNKTPKEM 292
Cdd:COG4977  282 AAACGFGSASHFRRAFRRRFGVSPSAY 308
HTH_18 pfam12833
Helix-turn-helix domain;
216-291 2.75e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 85.72  E-value: 2.75e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 961661304  216 LAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSK-ANEAALKVGYTSPSQFSREFKRHFNKTPKE 291
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTGLsVAEIALALGFSDASHFSRAFRRLFGLTPSE 77
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
190-292 5.36e-12

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 64.70  E-value: 5.36e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 190 DGHYARIARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKV 269
Cdd:PRK13503 167 ENSDARLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRC 246

                         90       100
                 ....*....|....*....|...
gi 961661304 270 GYTSPSQFSREFKRHFNKTPKEM 292
Cdd:PRK13503 247 GFGDSNHFSTLFRREFSWSPRDI 269
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 196-291 1.57e-11

YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only one protein with the YSIRK variant form of signal peptide (TIGR01168) were examined for conserved genes near that one tagged protein. This protein is found adjacent to at various classes of repetitive or low-complexity YSIRK proteins (whether unique in genome or not), in a range of species (Enterococcus faecalis X98, Ruminococcus torques, Coprobacillus sp. D7, Lysinibacillus fusiformis ZC1, Streptococcus equi subsp. equi 4047, etc). The affliated YSIRK proteins include Streptococcal protective antigen (see ) and proteins with the Rib/alpha/Esp surface antigen repeat (see TIGR02331). The last quarter of this protein has an AraC family helix-turn-helix (HTH)transcriptional regulator domain.


Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 63.93  E-value: 1.57e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304  196 IARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITaNGSKANEAALKVGYTSPS 275
Cdd:TIGR04094 287 IRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLLR-SQIPVSEVSNELGFYDLS 365

                          90
                  ....*....|....*.
gi 961661304  276 QFSREFKRHFNKTPKE 291
Cdd:TIGR04094 366 HFSRTFKKHTGVSPKQ 381
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 57-291 1.65e-08

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 54.65  E-value: 1.65e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304  57 GHKVIHFTDHKIQYGAGDYLVLgvpvpleceaftDGDLPvlgiaIDINPallhklvNQMTEHKQFALPPT--CGQMSGVQ 134
Cdd:PRK09685  80 GHAIIEQDDRQVQLAAGDITLI------------DASRP-----CSIYP-------QGLSEQISLLLPRElvEQYFPGQK 135

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 135 SA---KLD--NAMERVTKRLL-TVLNNPLEAQVFGEDIVKELVyrvlcgpqghTLFGLAMH------DGHYARIARTLSI 202
Cdd:PRK09685 136 PAcagRLSasLPMVQLSHRLLqQSMNGPALSETESEALLEALI----------ALLRPALHqresvqPRRERQFQKVVAL 205

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 203 MHSNYANP-ITVEGLAEDVNMSISSFHRAFKQVTfESPLQYLKKLRLAK-AKALIT-ANGSKANEAALKVGYTSPSQFSR 279
Cdd:PRK09685 206 IDQSIQEEiLRPEWIAGELGISVRSLYRLFAEQG-LVVAQYIRNRRLDRcADDLRPaADDEKITSIAYKWGFSDSSHFST 284

                        250
                 ....*....|..
gi 961661304 280 EFKRHFNKTPKE 291
Cdd:PRK09685 285 AFKQRFGVSPGE 296
 
Name Accession Description Interval E-value
AraC_N pfam06719
AraC-type transcriptional regulator N-terminus; This family represents the N-terminus of ...
 28-181 3.22e-44

AraC-type transcriptional regulator N-terminus; This family represents the N-terminus of bacterial ARAC-type transcriptional regulators. In E. coli, these regulate the L-arabinose operon through sensing the presence of arabinose, and when the sugar is present, transmitting this information from the arabinose-binding domains to the protein's DNA-binding domains. This family might represent the N-terminal arm of the protein, which binds to the C-terminal DNA binding domains to hold them in a state where the protein prefers to loop and remain non-activating. All family members contain the pfam00165 domain.


Pssm-ID: 461994  Cd Length: 152  Bit Score: 147.65  E-value: 3.22e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304   28 ITGVYFHRASKSSPRQPLIYNSGIIVVGQGHKVIHFTDHKIQYGAGDYLVLGVPVPLECEA-FTDGDLPVLGIAIDINPA 106
Cdd:pfam06719   2 IPGLTLFRTSEPTEPTPVVYEPSLCIVAQGAKRVHLGDETYEYDPGEYLVVSVDLPVTGEVtEASPEEPYLGLALDLDPA 81

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 961661304  107 LLHKLVNQMTehkqfALPPTCGQMSGVQSAKLDNAMERVTKRLLTVLNNPLEAQVFGEDIVKELVYRVLCGPQGH 181
Cdd:pfam06719  82 LLAELLLEAP-----PPGPPPRAGRGLAVSPLDEELLDAVLRLLRLLDTPEDIPVLAPLILREILYRLLTGPQGA 151
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
210-291 1.63e-26

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 99.55  E-value: 1.63e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304   210 PITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKVGYTSPSQFSREFKRHFNKTP 289
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ..
gi 961661304   290 KE 291
Cdd:smart00342  81 SE 82
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 186-292 7.23e-25

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: 101.39  E-value: 7.23e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 186 LAMHDGHYARIARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEA 265
Cdd:COG4977  202 LVPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEI 281

                         90       100
                 ....*....|....*....|....*..
gi 961661304 266 ALKVGYTSPSQFSREFKRHFNKTPKEM 292
Cdd:COG4977  282 AAACGFGSASHFRRAFRRRFGVSPSAY 308
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
211-291 5.00e-24

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 97.93  E-value: 5.00e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 211 ITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKVGYTSPSQFSREFKRHFNKTPK 290
Cdd:COG2207  169 LTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                 .
gi 961661304 291 E 291
Cdd:COG2207  249 E 249
HTH_18 pfam12833
Helix-turn-helix domain;
216-291 2.75e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 85.72  E-value: 2.75e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 961661304  216 LAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSK-ANEAALKVGYTSPSQFSREFKRHFNKTPKE 291
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTGLsVAEIALALGFSDASHFSRAFRRLFGLTPSE 77
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 187-292 7.89e-20

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: 88.19  E-value: 7.89e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 187 AMHDGHYARIARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKAnEAA 266
Cdd:COG2169   77 PGSPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGLSVT-DAA 155

                         90       100
                 ....*....|....*....|....*.
gi 961661304 267 LKVGYTSPSQFSREFKRHFNKTPKEM 292
Cdd:COG2169  156 YAAGFGSLSRFYEAFKKLLGMTPSAY 181
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
190-292 5.36e-12

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 64.70  E-value: 5.36e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 190 DGHYARIARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKV 269
Cdd:PRK13503 167 ENSDARLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRC 246

                         90       100
                 ....*....|....*....|...
gi 961661304 270 GYTSPSQFSREFKRHFNKTPKEM 292
Cdd:PRK13503 247 GFGDSNHFSTLFRREFSWSPRDI 269
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 196-291 1.57e-11

YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only one protein with the YSIRK variant form of signal peptide (TIGR01168) were examined for conserved genes near that one tagged protein. This protein is found adjacent to at various classes of repetitive or low-complexity YSIRK proteins (whether unique in genome or not), in a range of species (Enterococcus faecalis X98, Ruminococcus torques, Coprobacillus sp. D7, Lysinibacillus fusiformis ZC1, Streptococcus equi subsp. equi 4047, etc). The affliated YSIRK proteins include Streptococcal protective antigen (see ) and proteins with the Rib/alpha/Esp surface antigen repeat (see TIGR02331). The last quarter of this protein has an AraC family helix-turn-helix (HTH)transcriptional regulator domain.


Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 63.93  E-value: 1.57e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304  196 IARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITaNGSKANEAALKVGYTSPS 275
Cdd:TIGR04094 287 IRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLLR-SQIPVSEVSNELGFYDLS 365

                          90
                  ....*....|....*.
gi 961661304  276 QFSREFKRHFNKTPKE 291
Cdd:TIGR04094 366 HFSRTFKKHTGVSPKQ 381
ftrA PRK09393
transcriptional activator FtrA; Provisional
 194-289 6.68e-11

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 61.90  E-value: 6.68e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 194 ARIARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKVGYTS 273
Cdd:PRK09393 218 DRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGS 297

                         90
                 ....*....|....*.
gi 961661304 274 PSQFSREFKRHFNKTP 289
Cdd:PRK09393 298 EESLRHHFRRRAATSP 313
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 57-291 1.65e-08

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 54.65  E-value: 1.65e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304  57 GHKVIHFTDHKIQYGAGDYLVLgvpvpleceaftDGDLPvlgiaIDINPallhklvNQMTEHKQFALPPT--CGQMSGVQ 134
Cdd:PRK09685  80 GHAIIEQDDRQVQLAAGDITLI------------DASRP-----CSIYP-------QGLSEQISLLLPRElvEQYFPGQK 135

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 135 SA---KLD--NAMERVTKRLL-TVLNNPLEAQVFGEDIVKELVyrvlcgpqghTLFGLAMH------DGHYARIARTLSI 202
Cdd:PRK09685 136 PAcagRLSasLPMVQLSHRLLqQSMNGPALSETESEALLEALI----------ALLRPALHqresvqPRRERQFQKVVAL 205

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 203 MHSNYANP-ITVEGLAEDVNMSISSFHRAFKQVTfESPLQYLKKLRLAK-AKALIT-ANGSKANEAALKVGYTSPSQFSR 279
Cdd:PRK09685 206 IDQSIQEEiLRPEWIAGELGISVRSLYRLFAEQG-LVVAQYIRNRRLDRcADDLRPaADDEKITSIAYKWGFSDSSHFST 284

                        250
                 ....*....|..
gi 961661304 280 EFKRHFNKTPKE 291
Cdd:PRK09685 285 AFKQRFGVSPGE 296
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 203-244 2.20e-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: 46.38  E-value: 2.20e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 961661304  203 MHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLK 244
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
188-291 5.98e-07

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 49.97  E-value: 5.98e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 188 MHDghyARIARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAAL 267
Cdd:PRK10572 180 PMD---PRVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGR 256

                         90       100
                 ....*....|....*....|....
gi 961661304 268 KVGYTSPSQFSREFKRHFNKTPKE 291
Cdd:PRK10572 257 NVGYDDQLYFSRVFKKCTGASPSE 280
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
178-291 9.73e-07

bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 49.41  E-value: 9.73e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 178 PQGHTLfglamhdghyARIARTLSIMHSNyaNPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALItA 257
Cdd:PRK15435  79 PQQHRL----------DKITHACRLLEQE--TPVTLEALADQVAMSPFHLHRLFKATTGMTPKAWQQAWRARRLREAL-A 145

                         90       100       110
                 ....*....|....*....|....*....|....
gi 961661304 258 NGSKANEAALKVGYTSPSQFSREFKRHFNKTPKE 291
Cdd:PRK15435 146 KGESVTTSILNAGFPDSSSYYRKADETLGMTAKQ 179
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 115-293 1.01e-06

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 49.29  E-value: 1.01e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 115 MTEHKQFALP---PTCGQMSgvqsAKLDNAMERVTKRLLTVLNNPLEAQVFGEDIVKELVYRVLCGPQGHTLFGLAMHDG 191
Cdd:PRK15186 106 LYEHADFSAPltkPTTKHLL----APIETGVARVFNLLHSSNKSQKLSQDKKEYLIRFLLSEFIYEPEAFALFRELSQNT 181

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 192 HYARIartLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKlRLAKAKALITANGSKANEAALKVGY 271
Cdd:PRK15186 182 LAENI---YNIIISDISRKWALKDISDSLYMSCSTLKRKLKQENTSFSEVYLNA-RMNKATKLLRNSEYNITRVAYMCGY 257

                        170       180
                 ....*....|....*....|..
gi 961661304 272 TSPSQFSREFKRHFNKTPKEML 293
Cdd:PRK15186 258 DSASYFTCVFKKHFKTTPSEFL 279
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
206-289 4.05e-06

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 44.92  E-value: 4.05e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 206 NYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKVGYTSPSQFSREFKRHF 285
Cdd:PRK10219  17 HIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRVFRRQF 96


                 ....
gi 961661304 286 NKTP 289
Cdd:PRK10219  97 DRTP 100
PRK10130 PRK10130
HTH-type transcriptional regulator EutR;
189-293 9.55e-06

HTH-type transcriptional regulator EutR;


Pssm-ID: 182258 [Multi-domain]  Cd Length: 350  Bit Score: 46.45  E-value: 9.55e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 189 HDGHYARIARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRL-AKAKALIT--ANGSKANEA 265
Cdd:PRK10130 235 HQSYRRLLSRAREYVLENMSEPVTVLDLCNQLHVSRRTLQNAFHAILGIGPNAWLKRIRLnAVRRELISpwSQSTTVKDA 314

                         90       100
                 ....*....|....*....|....*...
gi 961661304 266 ALKVGYTSPSQFSREFKRHFNKTPKEML 293
Cdd:PRK10130 315 AMQWGFWHLGQFATDYQQLFAEKPSLTL 342
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
200-290 1.18e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 42.97  E-value: 1.18e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 200 LSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKVGYTSPSQFSR 279
Cdd:PRK13501 182 MSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSA 261

                         90
                 ....*....|.
gi 961661304 280 EFKRHFNKTPK 290
Cdd:PRK13501 262 VFTREAGMTPR 272
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 198-291 1.49e-04

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 42.61  E-value: 1.49e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 198 RTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFK--QVTFEsplQYLKKLRLAKAKALITANGSKANEAALKVGYTSPS 275
Cdd:PRK09978 146 RVCTVINNNIAHEWTLARIASELLMSPSLLKKKLReeETSYS---QLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVS 222

                         90
                 ....*....|....*.
gi 961661304 276 QFSREFKRHFNKTPKE 291
Cdd:PRK09978 223 YFIYVFRNYYGMTPTE 238
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 197-292 3.96e-04

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 41.22  E-value: 3.96e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 197 ARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQ--VTFEsplQYLKKLRLAKAKALITANGSkANEAALKVGYTSP 274
Cdd:PRK09940 137 GKVRNIVNMKLAHPWKLKDICDCLYISESLLKKKLKQeqTTFS---QILLDARMQHAKNLIRVEGS-VNKIAEQCGYAST 212

                         90
                 ....*....|....*...
gi 961661304 275 SQFSREFKRHFNKTPKEM 292
Cdd:PRK09940 213 SYFIYAFRKHFGNSPKRV 230
PRK10371 PRK10371
transcriptional regulator MelR;
196-291 4.36e-04

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 41.34  E-value: 4.36e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 196 IARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKVGYTSPS 275
Cdd:PRK10371 193 VSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSS 272

                         90
                 ....*....|....*.
gi 961661304 276 QFSREFKRHFNKTPKE 291
Cdd:PRK10371 273 RFYSTFGKYVGMSPQQ 288
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 263-293 6.07e-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: 6.07e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 961661304  263 NEAALKVGYtSPSQFSREFKRHFNKTPKEML 293
Cdd:pfam00165  12 ADIADELGF-SRSYFSRLFKKYTGVTPSQYR 41
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
196-289 1.80e-03

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 37.77  E-value: 1.80e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 196 IARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKVGYTSPS 275
Cdd:PRK11511  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQ 90

                         90
                 ....*....|....
gi 961661304 276 QFSREFKRHFNKTP 289
Cdd:PRK11511  91 TLTRTFKNYFDVPP 104
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 198-289 1.83e-03

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 39.21  E-value: 1.83e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 198 RTLSIMHSNYANPITVEGLAEDVNMSISSFHR--AFKQVTFeSPLQYLKKLRLAkAKALITANGSkANEAALKVGYTSPS 275
Cdd:PRK15185 210 RVYNIISSSPSRQWKLTDVADHIFMSTSTLKRklAEEGTSF-SDIYLSARMNQA-AKLLRIGNHN-VNAVALKCGYDSTS 286

                         90
                 ....*....|....
gi 961661304 276 QFSREFKRHFNKTP 289
Cdd:PRK15185 287 YFIQCFKKYFKTTP 300
PRK15340 PRK15340
AraC family transcriptional regulator InvF;
212-292 4.08e-03

AraC family transcriptional regulator InvF;


Pssm-ID: 185240  Cd Length: 216  Bit Score: 37.65  E-value: 4.08e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 212 TVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKVGYTSPSQFSREFKRHFNKTPKE 291
Cdd:PRK15340 127 TMRMLGEDYGVSYTHFRRLCSRALGGKAKSELRNWRMAQSLLNSVEGHENITQLAVNHGYSSPSHFSSEIKELIGVSPRK 206


                 .
gi 961661304 292 M 292
Cdd:PRK15340 207 L 207
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 249-293 8.14e-03

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: 37.34  E-value: 8.14e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 961661304 249 AKAKALITAN-GSKANEAAL--KVGYtSPSQFSREFKRHFNKTPKEML 293
Cdd:COG2169   87 ARACRLIEAGaEDRPSLEDLaaRLGL-SPRHLRRLFKAHTGVTPKAYA 133
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
200-289 8.45e-03

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 37.30  E-value: 8.45e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 200 LSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKVGYTSPSQFSR 279
Cdd:PRK15121  11 LIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQQTFTR 90

                         90
                 ....*....|
gi 961661304 280 EFKRHFNKTP 289
Cdd:PRK15121  91 AFKKQFAQTP 100
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
192-291 8.66e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 36.96  E-value: 8.66e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961661304 192 HYARIARTLSIMHSNYANPITVEGLAEDVNMSISSFHRAFKQVTFESPLQYLKKLRLAKAKALITANGSKANEAALKVGY 271
Cdd:PRK13502 174 RETLLDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGF 253

                         90       100
                 ....*....|....*....|
gi 961661304 272 TSPSQFSREFKRHFNKTPKE 291
Cdd:PRK13502 254 EDSNYFSVVFTRETGMTPSQ 273
 
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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