NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|446135956|ref|WP_000213811|]
View 

MULTISPECIES: helix-turn-helix transcriptional regulator [Terrabacteria group]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 10787697)

helix-turn-helix (HTH) transcriptional regulator containing a XRE (Xenobiotic Response Element) family HTH domain may act as a transcriptional regulator that controls the expression of genes involved in stress response

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  10473770|2644244
SCOP:  4000362

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
12-70 3.66e-08

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


:

Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 44.84  E-value: 3.66e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446135956 12 KIKSLIALKGTNQKEVAKAIGMSRSLlsikINRI-NGR-DFTTSEAKKLADHLNVKVDDFF 70
Cdd:COG1476   8 RLKELRKERGLTQEELAELLGVSRQT----ISAIeNGKyNPSLELALKIARALGVSLEELF 64
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
12-70 3.66e-08

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 44.84  E-value: 3.66e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446135956 12 KIKSLIALKGTNQKEVAKAIGMSRSLlsikINRI-NGR-DFTTSEAKKLADHLNVKVDDFF 70
Cdd:COG1476   8 RLKELRKERGLTQEELAELLGVSRQT----ISAIeNGKyNPSLELALKIARALGVSLEELF 64
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
12-69 5.37e-07

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 41.73  E-value: 5.37e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 446135956   12 KIKSLIALKGTNQKEVAKAIGMSRSLLSikiNRING-RDFTTSEAKKLADHLNVKVDDF 69
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLS---RIENGkRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 13-69 1.23e-06

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: 40.60  E-value: 1.23e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446135956  13 IKSLIALKGTNQKEVAKAIGMSRSLLSikiNRING-RDFTTSEAKKLADHLNVKVDDF 69
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTIS---KIENGkREPSLETLKKLAEALGVSLDEL 55
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 12-69 1.37e-06

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: 40.61  E-value: 1.37e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 446135956 12 KIKSLIALKGTNQKEVAKAIGMSRSLLSikiNRING-RDFTTSEAKKLADHLNVKVDDF 69
Cdd:cd00093   3 RLKELRKEKGLTQEELAEKLGVSRSTIS---RIENGkRNPSLETLEKLAKALGVSLDEL 58
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
12-70 3.66e-08

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 44.84  E-value: 3.66e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446135956 12 KIKSLIALKGTNQKEVAKAIGMSRSLlsikINRI-NGR-DFTTSEAKKLADHLNVKVDDFF 70
Cdd:COG1476   8 RLKELRKERGLTQEELAELLGVSRQT----ISAIeNGKyNPSLELALKIARALGVSLEELF 64
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
12-69 5.37e-07

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 41.73  E-value: 5.37e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 446135956   12 KIKSLIALKGTNQKEVAKAIGMSRSLLSikiNRING-RDFTTSEAKKLADHLNVKVDDF 69
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLS---RIENGkRKPSLETLKKLAKALGVSLDEL 56
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
12-70 1.08e-06

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 41.52  E-value: 1.08e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 446135956 12 KIKSLIALKGTNQKEVAKAIGMSRSLLSiKINRiNGRDFTTSEAKKLADHLNVKVDDFF 70
Cdd:COG1396  11 RLRELRKARGLTQEELAERLGVSRSTIS-RIER-GRRNPSLETLLKLAKALGVSLDELL 67
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 13-69 1.23e-06

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: 40.60  E-value: 1.23e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446135956  13 IKSLIALKGTNQKEVAKAIGMSRSLLSikiNRING-RDFTTSEAKKLADHLNVKVDDF 69
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTIS---KIENGkREPSLETLKKLAEALGVSLDEL 55
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 12-69 1.37e-06

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: 40.61  E-value: 1.37e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 446135956 12 KIKSLIALKGTNQKEVAKAIGMSRSLLSikiNRING-RDFTTSEAKKLADHLNVKVDDF 69
Cdd:cd00093   3 RLKELRKEKGLTQEELAEKLGVSRSTIS---RIENGkRNPSLETLEKLAKALGVSLDEL 58
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 12-68 7.43e-05

Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and HTH domains [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441418 [Multi-domain]  Cd Length: 70  Bit Score: 36.45  E-value: 7.43e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 446135956 12 KIKSLIALKGTNQKEVAKAIGMSRSLlsikINRI-NGR-DFTTSEAKKLADHLNVKVDD 68
Cdd:COG1813  16 RIREAREARGLSQEELAEKLGVSEST----IRRIeRGEaTPSLDTLRKLEKALGISLAE 70
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 12-70 1.73e-04

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: 35.59  E-value: 1.73e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 446135956  12 KIKSLIALKGTNQKEVAKAIGMSRSLLSIKINRINGRdFTTSEAKKLADHLNVKVDDFF 70
Cdd:pfam13443  1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKPKR-VSLDTLDKICDALGCQPGDLL 58
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 20-64 4.46e-03

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


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 32.47  E-value: 4.46e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 446135956 20 KGTNQKEVAKAIGMSRSLLSiKInrING-RDFTTSEAKKLADHLNV 64
Cdd:COG3093  21 LGLSQTELAKALGVSRQRIS-EI--LNGkRAITADTALRLARAFGT 63
 
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