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Conserved domains on  [gi|9948861|gb|AAG06168|]
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hypothetical protein PA2780 [Pseudomonas aeruginosa PAO1]

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];
1-70 6.32e-10

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 51.54  E-value: 6.32e-10
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948861    1 MLGTRLKAARIRAGYSQKQLGMLVGMDEfsasARMNQYERERHSPNMRTSEQLAMVLQVPMAYLYCPEDE 70
Cdd:COG1396   7 ALGERLRELRKARGLTQEELAERLGVSR----STISRIERGRRNPSLETLLKLAKALGVSLDELLGGADE 72
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-70 6.32e-10

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 51.54  E-value: 6.32e-10
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948861    1 MLGTRLKAARIRAGYSQKQLGMLVGMDEfsasARMNQYERERHSPNMRTSEQLAMVLQVPMAYLYCPEDE 70
Cdd:COG1396   7 ALGERLRELRKARGLTQEELAERLGVSR----STISRIERGRRNPSLETLLKLAKALGVSLDELLGGADE 72
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 3-64 1.50e-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: 47.16  E-value: 1.50e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 9948861    3 GTRLKAARIRAGYSQKQLGMLVGMDEfsasARMNQYERERHSPNMRTSEQLAMVLQVPMAYL 64
Cdd:cd00093   1 GERLKELRKEKGLTQEELAEKLGVSR----STISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
5-64 1.33e-06

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 42.12  E-value: 1.33e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948861       5 RLKAARIRAGYSQKQLGMLVGMDEfsasARMNQYERERHSPNMRTSEQLAMVLQVPMAYL 64
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSR----STLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 6-64 1.11e-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: 39.83  E-value: 1.11e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 9948861      6 LKAARIRAGYSQKQLGMLVGMDEfsasARMNQYERERHSPNMRTSEQLAMVLQVPMAYL 64
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSR----STISKIENGKREPSLETLKKLAEALGVSLDEL 55
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-70 6.32e-10

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 51.54  E-value: 6.32e-10
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948861    1 MLGTRLKAARIRAGYSQKQLGMLVGMDEfsasARMNQYERERHSPNMRTSEQLAMVLQVPMAYLYCPEDE 70
Cdd:COG1396   7 ALGERLRELRKARGLTQEELAERLGVSR----STISRIERGRRNPSLETLLKLAKALGVSLDELLGGADE 72
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-69 2.28e-09

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 49.46  E-value: 2.28e-09
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 9948861    1 MLGTRLKAARIRAGYSQKQLGMLVGMDEfsasARMNQYERERHSPNMRTSEQLAMVLQVPMAYLYCPED 69
Cdd:COG1476   4 KLGNRLKELRKERGLTQEELAELLGVSR----QTISAIENGKYNPSLELALKIARALGVSLEELFSLEE 68
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 3-64 1.50e-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: 47.16  E-value: 1.50e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 9948861    3 GTRLKAARIRAGYSQKQLGMLVGMDEfsasARMNQYERERHSPNMRTSEQLAMVLQVPMAYL 64
Cdd:cd00093   1 GERLKELRKEKGLTQEELAEKLGVSR----STISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
5-64 1.33e-06

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 42.12  E-value: 1.33e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 9948861       5 RLKAARIRAGYSQKQLGMLVGMDEfsasARMNQYERERHSPNMRTSEQLAMVLQVPMAYL 64
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSR----STLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 2-63 1.45e-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: 42.62  E-value: 1.45e-06
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 9948861    2 LGTRLKAARIRAGYSQKQLGMLVGMDEfsasARMNQYERERHSPNMRTSEQLAMVLQVPMAY 63
Cdd:COG1813  13 YGERIREAREARGLSQEELAEKLGVSE----STIRRIERGEATPSLDTLRKLEKALGISLAE 70
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 6-64 1.11e-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: 39.83  E-value: 1.11e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 9948861      6 LKAARIRAGYSQKQLGMLVGMDEfsasARMNQYERERHSPNMRTSEQLAMVLQVPMAYL 64
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSR----STISKIENGKREPSLETLKKLAEALGVSLDEL 55
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 3-70 9.36e-05

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: 37.65  E-value: 9.36e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 9948861      3 GTRLKAARIRAGYSQKQLGMLVGMDefsaSARMNQYERERHSPNMRTSEQLAMVLQVPMAYLYCPEDE 70
Cdd:pfam12844   1 GERLRKAREERGLTQEELAERLGIS----RSQLSAIENGKSVPPAETLYKIAELLGVPANWLLQGEGE 64
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 2-74 3.36e-04

Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433309 [Multi-domain]  Cd Length: 64  Bit Score: 35.97  E-value: 3.36e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 9948861      2 LGTRLKAARIRAGYSQKQLGMLVGMDEfsasARMNQYERERHS-PNMRTSEQLAMVLQVpmaylycPEDELAEL 74
Cdd:pfam13560   2 LGARLRRLRERAGLSQEALARRLGVSR----STLSRLETGRRGrPSPAVVERLARALGV-------DGAERAEL 64
 
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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