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Conserved domains on  [gi|2569508619|ref|WP_306803804|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Stenotrophomonas]

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

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List of domain hits

 Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
53-109 1.28e-09

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 51.54  E-value: 1.28e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2569508619  53 GLSQADLGAVLGLedqnsAAPRISRYERGERMPDEATMERLAEELGLPVAYFHAASD 109
Cdd:COG1396    20 GLTQEELAERLGV-----SRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGAD 71
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
53-109 1.28e-09

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 51.54  E-value: 1.28e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2569508619  53 GLSQADLGAVLGLedqnsAAPRISRYERGERMPDEATMERLAEELGLPVAYFHAASD 109
Cdd:COG1396    20 GLTQEELAERLGV-----SRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGAD 71
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 53-104 8.40e-09

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: 48.70  E-value: 8.40e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2569508619  53 GLSQADLGAVLGLedqnsAAPRISRYERGERMPDEATMERLAEELGLPVAYF 104
Cdd:cd00093    12 GLTQEELAEKLGV-----SRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
53-104 1.28e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 48.28  E-value: 1.28e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 2569508619   53 GLSQADLGAVLGLedqnsAAPRISRYERGERMPDEATMERLAEELGLPVAYF 104
Cdd:smart00530  10 GLTQEELAEKLGV-----SRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 53-104 3.80e-08

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: 47.15  E-value: 3.80e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2569508619  53 GLSQADLGAVLGLedqnsAAPRISRYERGERMPDEATMERLAEELGLPVAYF 104
Cdd:pfam01381   9 GLSQEELAEKLGV-----SRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 38-103 9.27e-03

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 35.48  E-value: 9.27e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2569508619  38 STTYGRRLREARLARGLSQADLgaVLGLEDQNSAAPR--ISRYERGERMPDEATMERLAEELGLPVAY 103
Cdd:PRK13355    1 KTTFAERLKQAMKARGLKQEDL--VHAAEARGVKLGKshISQYVSGKTGPRRDVLPFLAAILGVSEDW 66
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
53-109 1.28e-09

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 51.54  E-value: 1.28e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2569508619  53 GLSQADLGAVLGLedqnsAAPRISRYERGERMPDEATMERLAEELGLPVAYFHAASD 109
Cdd:COG1396    20 GLTQEELAERLGV-----SRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGAD 71
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 53-104 8.40e-09

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: 48.70  E-value: 8.40e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2569508619  53 GLSQADLGAVLGLedqnsAAPRISRYERGERMPDEATMERLAEELGLPVAYF 104
Cdd:cd00093    12 GLTQEELAEKLGV-----SRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
53-104 1.28e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 48.28  E-value: 1.28e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 2569508619   53 GLSQADLGAVLGLedqnsAAPRISRYERGERMPDEATMERLAEELGLPVAYF 104
Cdd:smart00530  10 GLTQEELAEKLGV-----SRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 53-104 3.80e-08

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: 47.15  E-value: 3.80e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2569508619  53 GLSQADLGAVLGLedqnsAAPRISRYERGERMPDEATMERLAEELGLPVAYF 104
Cdd:pfam01381   9 GLSQEELAEKLGV-----SRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
53-104 4.17e-06

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 42.14  E-value: 4.17e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2569508619  53 GLSQADLGAVLGLEDQnsaapRISRYERGERMPDEATMERLAEELGLPVAYF 104
Cdd:COG1476    17 GLTQEELAELLGVSRQ-----TISAIENGKYNPSLELALKIARALGVSLEEL 63
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 52-103 6.29e-06

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: 41.46  E-value: 6.29e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2569508619  52 RGLSQADLGAVLGlEDQNSaaprISRYERGERMPDEATMERLAEELGLPVAY 103
Cdd:COG1813    24 RGLSQEELAEKLG-VSEST----IRRIERGEATPSLDTLRKLEKALGISLAE 70
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 53-104 8.18e-04

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. This family contains many example antitoxins from bacterial toxin-antitoxin systems. These antitoxins are likely to be DNA-binding domains.


Pssm-ID: 463728 [Multi-domain]  Cd Length: 64  Bit Score: 35.73  E-value: 8.18e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2569508619  53 GLSQADLGAVLGLEDQnsaapRISRYERGERMPDEATMERLAEELGLPVAYF 104
Cdd:pfam12844  12 GLTQEELAERLGISRS-----QLSAIENGKSVPPAETLYKIAELLGVPANWL 58
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 38-103 9.27e-03

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 35.48  E-value: 9.27e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2569508619  38 STTYGRRLREARLARGLSQADLgaVLGLEDQNSAAPR--ISRYERGERMPDEATMERLAEELGLPVAY 103
Cdd:PRK13355    1 KTTFAERLKQAMKARGLKQEDL--VHAAEARGVKLGKshISQYVSGKTGPRRDVLPFLAAILGVSEDW 66
 
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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