NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|658549018|ref|WP_029741460|]
View 

MULTISPECIES: XRE family transcriptional regulator [Enterobacter]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 366238)

helix-turn-helix (HTH) domain-containing protein with an XRE (Xenobiotic Response Element) family; HTH domain binds DNA and may function as a transcriptional regulator

Gene Ontology:  GO:0003677|GO:0006355

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
HTH_XRE super family cl22854
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 33-89 3.13e-05

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


The actual alignment was detected with superfamily member pfam13744:

Pssm-ID: 473980 [Multi-domain]  Cd Length: 80  Bit Score: 38.75  E-value: 3.13e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 658549018   33 LAELREKVQKTQVEMAQALGIRQPTVAVMEKP-GRDLKLSSLKRYVEAAGGKLRLDVE 89
Cdd:pfam13744  23 IARLIEGRGLSQQEAAALLGIAQPKVSALLKGkLSRFSLDKLLDFLTALGQDVEIVVK 80
 
Name Accession Description Interval E-value
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 33-89 3.13e-05

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: 38.75  E-value: 3.13e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 658549018   33 LAELREKVQKTQVEMAQALGIRQPTVAVMEKP-GRDLKLSSLKRYVEAAGGKLRLDVE 89
Cdd:pfam13744  23 IARLIEGRGLSQQEAAALLGIAQPKVSALLKGkLSRFSLDKLLDFLTALGQDVEIVVK 80
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 33-85 6.68e-04

Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain CBS pair) [Transcription];


Pssm-ID: 442838 [Multi-domain]  Cd Length: 95  Bit Score: 35.77  E-value: 6.68e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 658549018  33 LAELREKVQKTQVEMAQALGIRQPTVAVMEKPGRDLKLSSLKRYVEAAGGKLR 85
Cdd:COG3620   22 LRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELS 74
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
33-79 1.22e-03

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 34.03  E-value: 1.22e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 658549018    33 LAELREKVQKTQVEMAQALGIRQPTVAVMEKPGRDLKLSSLKRYVEA 79
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKA 48
PRK05949 PRK05949
RNA polymerase sigma factor; Validated
 18-97 4.24e-03

RNA polymerase sigma factor; Validated


Pssm-ID: 180321 [Multi-domain]  Cd Length: 327  Bit Score: 34.82  E-value: 4.24e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 658549018  18 ASAQAIATdILLNIHLAELREKVQKTQVEMAQALGiRQPTVAVMEKpGRDLKLSSLKRYVEAAGGKLRLDVELPDGSHYE 97
Cdd:PRK05949 159 AIAQQART-IRLPIHITEKLNKIKKTQRELSQKLG-RSATPAEIAK-ELELEPSQIREYLSMARQPISLDVRVGDNQDTE 235
 
Name Accession Description Interval E-value
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 33-89 3.13e-05

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: 38.75  E-value: 3.13e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 658549018   33 LAELREKVQKTQVEMAQALGIRQPTVAVMEKP-GRDLKLSSLKRYVEAAGGKLRLDVE 89
Cdd:pfam13744  23 IARLIEGRGLSQQEAAALLGIAQPKVSALLKGkLSRFSLDKLLDFLTALGQDVEIVVK 80
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 33-85 6.68e-04

Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain CBS pair) [Transcription];


Pssm-ID: 442838 [Multi-domain]  Cd Length: 95  Bit Score: 35.77  E-value: 6.68e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 658549018  33 LAELREKVQKTQVEMAQALGIRQPTVAVMEKPGRDLKLSSLKRYVEAAGGKLR 85
Cdd:COG3620   22 LRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELS 74
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
33-79 1.22e-03

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 34.03  E-value: 1.22e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 658549018    33 LAELREKVQKTQVEMAQALGIRQPTVAVMEKPGRDLKLSSLKRYVEA 79
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKA 48
PRK05949 PRK05949
RNA polymerase sigma factor; Validated
 18-97 4.24e-03

RNA polymerase sigma factor; Validated


Pssm-ID: 180321 [Multi-domain]  Cd Length: 327  Bit Score: 34.82  E-value: 4.24e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 658549018  18 ASAQAIATdILLNIHLAELREKVQKTQVEMAQALGiRQPTVAVMEKpGRDLKLSSLKRYVEAAGGKLRLDVELPDGSHYE 97
Cdd:PRK05949 159 AIAQQART-IRLPIHITEKLNKIKKTQRELSQKLG-RSATPAEIAK-ELELEPSQIREYLSMARQPISLDVRVGDNQDTE 235
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 33-79 7.78e-03

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: 32.13  E-value: 7.78e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 658549018   33 LAELREKVQKTQVEMAQALGIRQPTVAVMEKPGRDLKLSSLKRYVEA 79
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEA 47
 
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