NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1358188986|ref|WP_105461295|]
View 

MULTISPECIES: AraC family transcriptional regulator [Bacilli]

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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
8-54 9.27e-13

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 59.79  E-value: 9.27e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1358188986   8 RYAKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYRKS 54
Cdd:COG2207   207 ERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKR 253
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
8-54 9.27e-13

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 59.79  E-value: 9.27e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1358188986   8 RYAKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYRKS 54
Cdd:COG2207   207 ERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKR 253
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
8-52 1.05e-11

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 53.71  E-value: 1.05e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1358188986   8 RYAKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYR 52
Cdd:smart00342 40 ERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEYR 84
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
10-54 5.92e-09

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 49.20  E-value: 5.92e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1358188986  10 AKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYRKS 54
Cdd:PRK10572  240 AKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRAR 284
HTH_18 pfam12833
Helix-turn-helix domain;
10-54 6.59e-08

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 44.12  E-value: 6.59e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 1358188986 10 AKFLLVY-TNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYRKS 54
Cdd:pfam12833 36 ARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRRR 81
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
8-54 9.27e-13

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 59.79  E-value: 9.27e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1358188986   8 RYAKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYRKS 54
Cdd:COG2207   207 ERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKR 253
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
8-52 1.05e-11

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 53.71  E-value: 1.05e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1358188986   8 RYAKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYR 52
Cdd:smart00342 40 ERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEYR 84
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
10-54 5.92e-09

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 49.20  E-value: 5.92e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1358188986  10 AKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYRKS 54
Cdd:PRK10572  240 AKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRAR 284
HTH_18 pfam12833
Helix-turn-helix domain;
10-54 6.59e-08

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 44.12  E-value: 6.59e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 1358188986 10 AKFLLVY-TNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYRKS 54
Cdd:pfam12833 36 ARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRRR 81
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 8-53 4.54e-07

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: 43.99  E-value: 4.54e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1358188986   8 RYAKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYRK 53
Cdd:COG4977   265 ERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRR 310
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
10-53 2.02e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 42.20  E-value: 2.02e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1358188986  10 AKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYRK 53
Cdd:PRK13501  233 AKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQ 276
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
9-52 5.79e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 40.81  E-value: 5.79e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1358188986   9 YAKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYR 52
Cdd:PRK13502  232 HAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWR 275
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
9-52 1.95e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 39.31  E-value: 1.95e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1358188986   9 YAKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYR 52
Cdd:PRK13500  262 HAQYLLQHSRLLISDISTECGFEDSNYFSVVFTRETGMTPSQWR 305
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 18-54 9.61e-05

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 37.32  E-value: 9.61e-05
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1358188986  18 NQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYRKS 54
Cdd:PRK09685  264 DEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRK 300
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 17-53 1.21e-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: 34.82  E-value: 1.21e-04
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 1358188986 17 TNQSISEISEYLIFnSQSYFTSVFKKETGKTPFEYRK 53
Cdd:pfam00165  7 TNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
30-55 2.97e-04

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 36.14  E-value: 2.97e-04
                          10        20
                  ....*....|....*....|....*.
gi 1358188986  30 FNSQSYFTSVFKKETGKTPFEYRKSD 55
Cdd:PRK15121   82 FDSQQTFTRAFKKQFAQTPALYRRSP 107
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
10-52 1.95e-03

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 33.88  E-value: 1.95e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1358188986  10 AKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYR 52
Cdd:PRK13503  228 ARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWSPRDIR 270
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 9-54 4.06e-03

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 32.81  E-value: 4.06e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1358188986   9 YAKFLLVYTNQSISEISEYLIFNSQSYFTSVFKKETGKTPFEYRKS 54
Cdd:PRK10296  228 FAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRKK 273
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
3-53 7.95e-03

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 32.06  E-value: 7.95e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1358188986   3 DRFSPRYAKFLLVYTNQSISEISEYL-IfnSQSYFTSVFKKETGKTPFEYRK 53
Cdd:COG2207   153 LLLLLLLLLLLLLLLLLTLEELARELgL--SPRTLSRLFKEETGTSPKQYLR 202
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH