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Conserved domains on  [gi|734882784|ref|WP_034128484|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Pseudomonas]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 10650117)

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

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  15808743|2644244|8831795
SCOP:  4000362

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
XRE super family cl43426
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
26-78 2.71e-05

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


The actual alignment was detected with superfamily member COG1476:

Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 39.45  E-value: 2.71e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 734882784  26 QARVMLGWSREELARQAGVAVQAIEKLE-GHGDVDDETRLILA--FRLEAEGLVFF 78
Cdd:COG1476   11 ELRKERGLTQEELAELLGVSRQTISAIEnGKYNPSLELALKIAraLGVSLEELFSL 66
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
26-78 2.71e-05

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 39.45  E-value: 2.71e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 734882784  26 QARVMLGWSREELARQAGVAVQAIEKLE-GHGDVDDETRLILA--FRLEAEGLVFF 78
Cdd:COG1476   11 ELRKERGLTQEELAELLGVSRQTISAIEnGKYNPSLELALKIAraLGVSLEELFSL 66
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
25-75 5.38e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 38.27  E-value: 5.38e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 734882784    25 AQARVMLGWSREELARQAGVAVQAIEKLE-GHGDVDDET--RLILAFRLEAEGL 75
Cdd:smart00530   3 KELREEKGLTQEELAEKLGVSRSTLSRIEnGKRKPSLETlkKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 26-67 3.23e-04

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: 36.38  E-value: 3.23e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 734882784  26 QARVMLGWSREELARQAGVAVQAIEKLE-GHGDVDDETRLILA 67
Cdd:cd00093    6 ELRKEKGLTQEELAEKLGVSRSTISRIEnGKRNPSLETLEKLA 48
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 25-75 4.23e-04

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: 35.98  E-value: 4.23e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 734882784   25 AQARVMLGWSREELARQAGVAVQAIEKLE-GHGDVDDET--RLILAFRLEAEGL 75
Cdd:pfam01381   2 KELREELGLSQEELAEKLGVSRSTISKIEnGKREPSLETlkKLAEALGVSLDEL 55
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
26-78 2.71e-05

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 39.45  E-value: 2.71e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 734882784  26 QARVMLGWSREELARQAGVAVQAIEKLE-GHGDVDDETRLILA--FRLEAEGLVFF 78
Cdd:COG1476   11 ELRKERGLTQEELAELLGVSRQTISAIEnGKYNPSLELALKIAraLGVSLEELFSL 66
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 26-71 4.45e-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: 38.77  E-value: 4.45e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 734882784  26 QARVMLGWSREELARQAGVAVQAIEKLE-GHGDVDDETRLILAFRLE 71
Cdd:COG1813   19 EAREARGLSQEELAEKLGVSESTIRRIErGEATPSLDTLRKLEKALG 65
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
25-75 5.38e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 38.27  E-value: 5.38e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 734882784    25 AQARVMLGWSREELARQAGVAVQAIEKLE-GHGDVDDET--RLILAFRLEAEGL 75
Cdd:smart00530   3 KELREEKGLTQEELAEKLGVSRSTLSRIEnGKRKPSLETlkKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 26-67 3.23e-04

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: 36.38  E-value: 3.23e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 734882784  26 QARVMLGWSREELARQAGVAVQAIEKLE-GHGDVDDETRLILA 67
Cdd:cd00093    6 ELRKEKGLTQEELAEKLGVSRSTISRIEnGKRNPSLETLEKLA 48
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
26-67 3.29e-04

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 36.90  E-value: 3.29e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 734882784  26 QARVMLGWSREELARQAGVAVQAIEKLE-GHGDVDDETRLILA 67
Cdd:COG1396   14 ELRKARGLTQEELAERLGVSRSTISRIErGRRNPSLETLLKLA 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 25-75 4.23e-04

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: 35.98  E-value: 4.23e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 734882784   25 AQARVMLGWSREELARQAGVAVQAIEKLE-GHGDVDDET--RLILAFRLEAEGL 75
Cdd:pfam01381   2 KELREELGLSQEELAEKLGVSRSTISKIEnGKREPSLETlkKLAEALGVSLDEL 55
 
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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