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Conserved domains on  [gi|446924834|ref|WP_001002090|]
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MULTISPECIES: AraC family transcriptional regulator [Bacillus]

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];
20-100 3.04e-18

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 83.29  E-value: 3.04e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834  20 FSLDNLSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDLTN-DRKIIDIALDYDYSSQEAYSRAFKNVFGMNPR 98
Cdd:COG2207  169 LTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAEtDLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                 ..
gi 446924834  99 EF 100
Cdd:COG2207  249 EY 250
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
20-100 3.04e-18

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 83.29  E-value: 3.04e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834  20 FSLDNLSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDLTN-DRKIIDIALDYDYSSQEAYSRAFKNVFGMNPR 98
Cdd:COG2207  169 LTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAEtDLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                 ..
gi 446924834  99 EF 100
Cdd:COG2207  249 EY 250
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
5-101 1.27e-17

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 77.66  E-value: 1.27e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834   5 IQQMIDWIEGNLKKGFSLDNLSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDL-TNDRKIIDIALDYDYSSQE 83
Cdd:PRK10219   7 IQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELrTTERPIFDIAMDLGYVSQQ 86

                         90
                 ....*....|....*...
gi 446924834  84 AYSRAFKNVFGMNPREFQ 101
Cdd:PRK10219  87 TFSRVFRRQFDRTPSDYR 104
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
21-100 2.33e-17

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 76.05  E-value: 2.33e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834    21 SLDNLSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDLTN-DRKIIDIALDYDYSSQEAYSRAFKNVFGMNPRE 99
Cdd:smart00342   3 TLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDtDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSE 82


                   .
gi 446924834   100 F 100
Cdd:smart00342  83 Y 83
HTH_18 pfam12833
Helix-turn-helix domain;
25-101 9.77e-15

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 68.77  E-value: 9.77e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446924834   25 LSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDLTN--DRKIIDIALDYDYSSQEAYSRAFKNVFGMNPREFQ 101
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
20-100 3.04e-18

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 83.29  E-value: 3.04e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834  20 FSLDNLSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDLTN-DRKIIDIALDYDYSSQEAYSRAFKNVFGMNPR 98
Cdd:COG2207  169 LTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAEtDLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                 ..
gi 446924834  99 EF 100
Cdd:COG2207  249 EY 250
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
5-101 1.27e-17

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 77.66  E-value: 1.27e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834   5 IQQMIDWIEGNLKKGFSLDNLSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDL-TNDRKIIDIALDYDYSSQE 83
Cdd:PRK10219   7 IQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELrTTERPIFDIAMDLGYVSQQ 86

                         90
                 ....*....|....*...
gi 446924834  84 AYSRAFKNVFGMNPREFQ 101
Cdd:PRK10219  87 TFSRVFRRQFDRTPSDYR 104
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
21-100 2.33e-17

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 76.05  E-value: 2.33e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834    21 SLDNLSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDLTN-DRKIIDIALDYDYSSQEAYSRAFKNVFGMNPRE 99
Cdd:smart00342   3 TLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDtDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSE 82


                   .
gi 446924834   100 F 100
Cdd:smart00342  83 Y 83
HTH_18 pfam12833
Helix-turn-helix domain;
25-101 9.77e-15

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 68.77  E-value: 9.77e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446924834   25 LSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDLTN--DRKIIDIALDYDYSSQEAYSRAFKNVFGMNPREFQ 101
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
5-97 8.57e-14

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 70.81  E-value: 8.57e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834   5 IQQMIDWIEGNLKKGFSLDNLSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDLT-NDRKIIDIALDYDYSSQE 83
Cdd:PRK15121   7 IRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRlTSRPILDIALQYRFDSQQ 86

                         90
                 ....*....|....
gi 446924834  84 AYSRAFKNVFGMNP 97
Cdd:PRK15121  87 TFTRAFKKQFAQTP 100
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
5-109 9.74e-13

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 64.35  E-value: 9.74e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834   5 IQQMIDWIEGNLKKGFSLDNLSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDLT-NDRKIIDIALDYDYSSQE 83
Cdd:PRK11511  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKeSNEPILYLAERYGFESQQ 90

                         90       100
                 ....*....|....*....|....*.
gi 446924834  84 AYSRAFKNVFGMNPREFQLNKMPIQS 109
Cdd:PRK11511  91 TLTRTFKNYFDVPPHKYRMTNMQGES 116
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 5-100 2.91e-10

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: 60.84  E-value: 2.91e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834   5 IQQMIDWIEGNLKKGFSLDNLSRYMGYSPYYcsfkFH----QVTGISIRRYILLSRLYLSTEDLTNDRKIIDIALDYDYS 80
Cdd:COG2169   86 VARACRLIEAGAEDRPSLEDLAARLGLSPRH----LRrlfkAHTGVTPKAYARARRLLRARQLLQTGLSVTDAAYAAGFG 161

                         90       100
                 ....*....|....*....|
gi 446924834  81 SQEAYSRAFKNVFGMNPREF 100
Cdd:COG2169  162 SLSRFYEAFKKLLGMTPSAY 181
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 2-100 9.20e-10

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: 59.02  E-value: 9.20e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834   2 NEHIQQMIDWIEGNLKKGFSLDNLSRYMGYSPYycSFK--FHQVTGISIRRYILLSRLYLSTEDLTN-DRKIIDIALDYD 78
Cdd:COG4977  209 DPRLARAQAWMEANLEEPLSVDELARRAGMSPR--TLErrFRAATGTTPARYLQRLRLERARRLLETtDLSIEEIAAACG 286

                         90       100
                 ....*....|....*....|..
gi 446924834  79 YSSQEAYSRAFKNVFGMNPREF 100
Cdd:COG4977  287 FGSASHFRRAFRRRFGVSPSAY 308
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 45-100 1.31e-08

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 55.42  E-value: 1.31e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 446924834  45 GISIRRYILLSRLYLSTEDLTN---DRKIIDIALDYDYSSQEAYSRAFKNVFGMNPREF 100
Cdd:PRK09685 239 GLVVAQYIRNRRLDRCADDLRPaadDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEY 297
PRK10371 PRK10371
transcriptional regulator MelR;
1-108 4.69e-08

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 54.06  E-value: 4.69e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834   1 MNEH----IQQMIDWIEGNLKKGFSLDNLSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDLTN-DRKIIDIAL 75
Cdd:PRK10371 185 VSRHaqfyVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDtDKSILDIAL 264

                         90       100       110
                 ....*....|....*....|....*....|...
gi 446924834  76 DYDYSSQEAYSRAFKNVFGMNPREFQlnKMPIQ 108
Cdd:PRK10371 265 TAGFRSSSRFYSTFGKYVGMSPQQYR--KLSQQ 295
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
1-100 6.47e-05

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 44.19  E-value: 6.47e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834   1 MNEHIQQMIDWIEGNLKKGFSLDNLSRYMGYSPYYCSFKFHQVTGISIRRY-----ILLSRLYLSTEDLTndrkIIDIAL 75
Cdd:PRK10572 181 MDPRVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWredqrISRAKLLLQTTRMP----IATIGR 256

                         90       100
                 ....*....|....*....|....*
gi 446924834  76 DYDYSSQEAYSRAFKNVFGMNPREF 100
Cdd:PRK10572 257 NVGYDDQLYFSRVFKKCTGASPSEF 281
ftrA PRK09393
transcriptional activator FtrA; Provisional
 7-97 6.04e-04

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 41.10  E-value: 6.04e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834   7 QMIDWIEGNLKKGFSLDNLSRYMGYSPYYCSFKFHQVTGISIRRYILLSRLYLSTEDLTNDR-KIIDIALDYDYSSQEAY 85
Cdd:PRK09393 222 PLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSAlSIDQIAERAGFGSEESL 301

                         90
                 ....*....|..
gi 446924834  86 SRAFKNVFGMNP 97
Cdd:PRK09393 302 RHHFRRRAATSP 313
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 62-100 2.32e-03

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: 35.59  E-value: 2.32e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 446924834   62 EDLTNDRKIIDIALDYDYSSQeAYSRAFKNVFGMNPREF 100
Cdd:pfam00165   3 ENLSTNLTIADIADELGFSRS-YFSRLFKKYTGVTPSQY 40
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
3-99 2.74e-03

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 38.89  E-value: 2.74e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446924834   3 EHIQQMIDWIEGNLKK-----------GFSLDNLSRYMgyspyycsfkfHQVTGISIRRYILLSRLYLSTEDLT-NDRKI 70
Cdd:PRK13503 171 ARLNQLLAWLEDHFAEevnwealadqfSLSLRTLHRQL-----------KQQTGLTPQRYLNRLRLLKARHLLRhSDASV 239

                         90       100
                 ....*....|....*....|....*....
gi 446924834  71 IDIALDYDYSSQEAYSRAFKNVFGMNPRE 99
Cdd:PRK13503 240 TDIAYRCGFGDSNHFSTLFRREFSWSPRD 268
 
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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