NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|495963513|ref|WP_008688092|]
View 

MULTISPECIES: helix-turn-helix domain-containing protein [Bacillota]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11443570)

helix-turn-helix domain-containing protein such as an XRE (Xenobiotic Response Element) family transcriptional regulator

Gene Ontology:  GO:0003677
PubMed:  37972151

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-70 7.55e-09

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 47.30  E-value: 7.55e-09
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 495963513  1 MD-IKTAVIYRLNDLIKQKDITVNEAAVRSGVPPSTLKNILYGQsRNAGVVTIKKICDGLDITIQEFFEDP 70
Cdd:COG1396   1 MStLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGR-RNPSLETLLKLAKALGVSLDELLGGA 70
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-70 7.55e-09

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 47.30  E-value: 7.55e-09
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 495963513  1 MD-IKTAVIYRLNDLIKQKDITVNEAAVRSGVPPSTLKNILYGQsRNAGVVTIKKICDGLDITIQEFFEDP 70
Cdd:COG1396   1 MStLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGR-RNPSLETLLKLAKALGVSLDELLGGA 70
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 10-66 8.02e-08

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 44.08  E-value: 8.02e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 495963513 10 RLNDLIKQKDITVNEAAVRSGVPPSTLKNILYGQsRNAGVVTIKKICDGLDITIQEF 66
Cdd:cd00093   3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGK-RNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
10-66 1.15e-07

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 43.66  E-value: 1.15e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 495963513   10 RLNDLIKQKDITVNEAAVRSGVPPSTLKNILYGQsRNAGVVTIKKICDGLDITIQEF 66
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGK-RKPSLETLKKLAKALGVSLDEL 56
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 10-68 4.38e-07

Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433211 [Multi-domain]  Cd Length: 63  Bit Score: 42.53  E-value: 4.38e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 495963513  10 RLNDLIKQKDITVNEAAVRSGVPPSTLKNILYGQSRNAGVVTIKKICDGLDITIQEFFE 68
Cdd:pfam13443  1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKPKRVSLDTLDKICDALGCQPGDLLE 59
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-70 7.55e-09

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 47.30  E-value: 7.55e-09
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 495963513  1 MD-IKTAVIYRLNDLIKQKDITVNEAAVRSGVPPSTLKNILYGQsRNAGVVTIKKICDGLDITIQEFFEDP 70
Cdd:COG1396   1 MStLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGR-RNPSLETLLKLAKALGVSLDELLGGA 70
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 10-66 8.02e-08

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 44.08  E-value: 8.02e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 495963513 10 RLNDLIKQKDITVNEAAVRSGVPPSTLKNILYGQsRNAGVVTIKKICDGLDITIQEF 66
Cdd:cd00093   3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGK-RNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
10-66 1.15e-07

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 43.66  E-value: 1.15e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 495963513   10 RLNDLIKQKDITVNEAAVRSGVPPSTLKNILYGQsRNAGVVTIKKICDGLDITIQEF 66
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGK-RKPSLETLKKLAKALGVSLDEL 56
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 10-68 4.38e-07

Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433211 [Multi-domain]  Cd Length: 63  Bit Score: 42.53  E-value: 4.38e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 495963513  10 RLNDLIKQKDITVNEAAVRSGVPPSTLKNILYGQSRNAGVVTIKKICDGLDITIQEFFE 68
Cdd:pfam13443  1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKPKRVSLDTLDKICDALGCQPGDLLE 59
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
10-69 1.54e-06

DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 40.99  E-value: 1.54e-06
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 495963513 10 RLNDLIKQKDITVNEAAVRSGVPPSTLKNILYGQsRNAGVVTIKKICDGLDITIQEFFED 69
Cdd:COG1476   8 RLKELRKERGLTQEELAELLGVSRQTISAIENGK-YNPSLELALKIARALGVSLEELFSL 66
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 11-66 2.10e-05

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 37.91  E-value: 2.10e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 495963513  11 LNDLIKQKDITVNEAAVRSGVPPSTLKNILYGQsRNAGVVTIKKICDGLDITIQEF 66
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGK-REPSLETLKKLAEALGVSLDEL 55
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 1-63 2.95e-04

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.


Pssm-ID: 433449 [Multi-domain]  Cd Length: 80  Bit Score: 35.66  E-value: 2.95e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 495963513   1 MDIKTAVIYRLNDLIKQKDITVNEAAVRSGVPPSTLKNILYGQSRNagvVTIKKICD-----GLDITI 63
Cdd:pfam13744 13 LQAKAQLARAIARLIEGRGLSQQEAAALLGIAQPKVSALLKGKLSR---FSLDKLLDfltalGQDVEI 77
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 13-45 7.64e-04

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 34.78  E-value: 7.64e-04
                        10        20        30
                ....*....|....*....|....*....|...
gi 495963513 13 DLIKQKDITVNEAAVRSGVPPSTLKNILYGQSR 45
Cdd:COG3093  16 EFLEPLGLSQTELAKALGVSRQRISEILNGKRA 48
 
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