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Conserved domains on  [gi|1574179426|ref|WP_129643965|]
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AraC family transcriptional regulator [Bacteroides uniformis]

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];
206-292 1.32e-22

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 94.08  E-value: 1.32e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 206 EERSVSYYADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIADELHFANQSFFGKYFKHHTGMS 285
Cdd:COG2207   167 LLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVT 246


                  ....*..
gi 1574179426 286 PKEYRRQ 292
Cdd:COG2207   247 PSEYRKR 253
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
206-292 1.32e-22

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 94.08  E-value: 1.32e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 206 EERSVSYYADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIADELHFANQSFFGKYFKHHTGMS 285
Cdd:COG2207   167 LLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVT 246


                  ....*..
gi 1574179426 286 PKEYRRQ 292
Cdd:COG2207   247 PSEYRKR 253
HTH_18 pfam12833
Helix-turn-helix domain;
213-292 3.07e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 88.03  E-value: 3.07e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 213 YADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALL-KSSEMSIQEIADELHFANQSFFGKYFKHHTGMSPKEYRR 291
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 1574179426 292 Q 292
Cdd:pfam12833  81 R 81
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
214-290 6.12e-18

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 76.82  E-value: 6.12e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1574179426  214 ADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIADELHFANQSFFGKYFKHHTGMSPKEYR 290
Cdd:smart00342   8 AEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEYR 84
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
200-292 1.19e-09

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 58.06  E-value: 1.19e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 200 VSESYKEERSVSYYADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIADELHFANQSFFGKYFK 279
Cdd:PRK10572  192 ISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFK 271

                          90
                  ....*....|...
gi 1574179426 280 HHTGMSPKEYRRQ 292
Cdd:PRK10572  272 KCTGASPSEFRAR 284
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 214-290 1.79e-08

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: 54.68  E-value: 1.79e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1574179426 214 ADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSeMSIQEIADELHFANQSFFGKYFKHHTGMSPKEYR 290
Cdd:TIGR04094 308 AKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLLRSQ-IPVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
206-292 1.32e-22

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 94.08  E-value: 1.32e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 206 EERSVSYYADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIADELHFANQSFFGKYFKHHTGMS 285
Cdd:COG2207   167 LLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVT 246


                  ....*..
gi 1574179426 286 PKEYRRQ 292
Cdd:COG2207   247 PSEYRKR 253
HTH_18 pfam12833
Helix-turn-helix domain;
213-292 3.07e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 88.03  E-value: 3.07e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 213 YADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALL-KSSEMSIQEIADELHFANQSFFGKYFKHHTGMSPKEYRR 291
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 1574179426 292 Q 292
Cdd:pfam12833  81 R 81
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
214-290 6.12e-18

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 76.82  E-value: 6.12e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1574179426  214 ADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIADELHFANQSFFGKYFKHHTGMSPKEYR 290
Cdd:smart00342   8 AEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 185-292 3.23e-12

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: 65.56  E-value: 3.23e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 185 PKSRKEDLFERFIRAVSESYKEERSVSYYADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIAD 264
Cdd:COG4977   204 PLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAA 283

                          90       100
                  ....*....|....*....|....*...
gi 1574179426 265 ELHFANQSFFGKYFKHHTGMSPKEYRRQ 292
Cdd:COG4977   284 ACGFGSASHFRRAFRRRFGVSPSAYRRR 311
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
200-292 1.19e-09

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 58.06  E-value: 1.19e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 200 VSESYKEERSVSYYADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIADELHFANQSFFGKYFK 279
Cdd:PRK10572  192 ISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFK 271

                          90
                  ....*....|...
gi 1574179426 280 HHTGMSPKEYRRQ 292
Cdd:PRK10572  272 KCTGASPSEFRAR 284
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 187-292 3.90e-09

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: 56.60  E-value: 3.90e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 187 SRKEDLFERFIRAVSESYKEERSVSYYADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSeMSIQEIADEL 266
Cdd:COG2169    80 PPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTG-LSVTDAAYAA 158

                          90       100
                  ....*....|....*....|....*.
gi 1574179426 267 HFANQSFFGKYFKHHTGMSPKEYRRQ 292
Cdd:COG2169   159 GFGSLSRFYEAFKKLLGMTPSAYRRG 184
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 214-290 1.79e-08

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: 54.68  E-value: 1.79e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1574179426 214 ADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSeMSIQEIADELHFANQSFFGKYFKHHTGMSPKEYR 290
Cdd:TIGR04094 308 AKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLLRSQ-IPVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
151-292 3.05e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 53.75  E-value: 3.05e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 151 KDNPFRKEITQGLLLALFYEI----YNIYQGHVvqerIPKSRKEDLFerfIRAVSESYKEERSVSYYADKMFLTAKHLST 226
Cdd:PRK13501  139 KTDSWSIQLTEVLLLQLAIVLkrhrYRAEQAHL----LPDGEQLDLI---MSALQQSLGAYFDMADFCHKNQLVERSLKQ 211

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1574179426 227 VVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIADELHFANQSFFGKYFKHHTGMSPKEYRRQ 292
Cdd:PRK13501  212 LFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQR 277
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
182-290 1.32e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 48.90  E-value: 1.32e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 182 ERIPKSRKEDLFERFIRAVSESYKEERSVSYYADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQE 261
Cdd:PRK13502  167 DDLPATSRETLLDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISE 246

                          90       100
                  ....*....|....*....|....*....
gi 1574179426 262 IADELHFANQSFFGKYFKHHTGMSPKEYR 290
Cdd:PRK13502  247 ISMQCGFEDSNYFSVVFTRETGMTPSQWR 275
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
195-292 3.19e-06

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 47.75  E-value: 3.19e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 195 RFIRAVSESYKEERSVSYYADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIADELHFANQSFF 274
Cdd:PRK13503  175 QLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHF 254

                          90
                  ....*....|....*...
gi 1574179426 275 GKYFKHHTGMSPKEYRRQ 292
Cdd:PRK13503  255 STLFRREFSWSPRDIRQG 272
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 254-291 2.66e-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: 40.60  E-value: 2.66e-05
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1574179426 254 SSEMSIQEIADELHFaNQSFFGKYFKHHTGMSPKEYRR 291
Cdd:pfam00165   6 STNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK10371 PRK10371
transcriptional regulator MelR;
200-291 3.72e-05

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 44.43  E-value: 3.72e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1574179426 200 VSESYKEERSVSYYADKMFLTAKHLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIADELHFANQSFFGKYFK 279
Cdd:PRK10371  200 IAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSSRFYSTFG 279

                          90
                  ....*....|..
gi 1574179426 280 HHTGMSPKEYRR 291
Cdd:PRK10371  280 KYVGMSPQQYRK 291
ftrA PRK09393
transcriptional activator FtrA; Provisional
 230-292 7.36e-05

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 43.41  E-value: 7.36e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1574179426 230 EISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIADELHFANQSFFGKYFKHHTGMSPKEYRRQ 292
Cdd:PRK09393  257 AATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEESLRHHFRRRAATSPAAYRKR 319
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 258-292 1.47e-03

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 39.63  E-value: 1.47e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1574179426 258 SIQEIADELHFANQSFFGKYFKHHTGMSPKEYRRQ 292
Cdd:PRK09685  266 KITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRK 300
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
223-290 4.80e-03

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 36.62  E-value: 4.80e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1574179426 223 HLSTVVKEISGKTAGEWIDSLVVLEAKALLKSSEMSIQEIADELHFANQSFFGKYFKHHTGMSPKEYR 290
Cdd:PRK11511   41 HLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQTLTRTFKNYFDVPPHKYR 108
 
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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