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Conserved domains on  [gi|497614587|ref|WP_009928771|]
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helix-turn-helix domain-containing protein [Listeria monocytogenes]

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];
1-75 1.79e-12

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 57.70  E-value: 1.79e-12
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 497614587   1 MTLLDLIKKLCKKRGISVTMLENELGLPDNTIYQWKN--RMPSVERLQVVADYFNVSIDYLLGRTDNPIIDSDIPPE 75
Cdd:COG1396    6 KALGERLRELRKARGLTQEELAERLGVSRSTISRIERgrRNPSLETLLKLAKALGVSLDELLGGADEELPEALLSEE 82
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-75 1.79e-12

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 57.70  E-value: 1.79e-12
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 497614587   1 MTLLDLIKKLCKKRGISVTMLENELGLPDNTIYQWKN--RMPSVERLQVVADYFNVSIDYLLGRTDNPIIDSDIPPE 75
Cdd:COG1396    6 KALGERLRELRKARGLTQEELAERLGVSRSTISRIERgrRNPSLETLLKLAKALGVSLDELLGGADEELPEALLSEE 82
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 7-59 1.20e-10

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: 52.56  E-value: 1.20e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 497614587   7 IKKLCKKRGISVTMLENELGLPDNTIYQWKN--RMPSVERLQVVADYFNVSIDYL 59
Cdd:cd00093    4 LKELRKEKGLTQEELAEKLGVSRSTISRIENgkRNPSLETLEKLAKALGVSLDEL 58
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 7-59 4.49e-09

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: 48.31  E-value: 4.49e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 497614587    7 IKKLCKKRGISVTMLENELGLPDNTIYQWKN--RMPSVERLQVVADYFNVSIDYL 59
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENgkREPSLETLKKLAEALGVSLDEL 55
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
7-59 2.44e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 46.36  E-value: 2.44e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 497614587     7 IKKLCKKRGISVTMLENELGLPDNTIYQWKN--RMPSVERLQVVADYFNVSIDYL 59
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENgkRKPSLETLKKLAKALGVSLDEL 56
PHA01976 PHA01976
helix-turn-helix protein
 7-63 2.71e-04

helix-turn-helix protein


Pssm-ID: 177330 [Multi-domain]  Cd Length: 67  Bit Score: 36.47  E-value: 2.71e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 497614587   7 IKKLCKKRGISVTMLENELGLPDNTIYQWK--NRMPSVERLQVVADYFNVSIDYLLGRT 63
Cdd:PHA01976   7 LIKARNARAWSAPELSRRAGVRHSLIYDFEadKRLPNLKTLLRLADALGVTLDWLCGRC 65
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-75 1.79e-12

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 57.70  E-value: 1.79e-12
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 497614587   1 MTLLDLIKKLCKKRGISVTMLENELGLPDNTIYQWKN--RMPSVERLQVVADYFNVSIDYLLGRTDNPIIDSDIPPE 75
Cdd:COG1396    6 KALGERLRELRKARGLTQEELAERLGVSRSTISRIERgrRNPSLETLLKLAKALGVSLDELLGGADEELPEALLSEE 82
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 7-59 1.20e-10

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: 52.56  E-value: 1.20e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 497614587   7 IKKLCKKRGISVTMLENELGLPDNTIYQWKN--RMPSVERLQVVADYFNVSIDYL 59
Cdd:cd00093    4 LKELRKEKGLTQEELAEKLGVSRSTISRIENgkRNPSLETLEKLAKALGVSLDEL 58
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 7-59 4.49e-09

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: 48.31  E-value: 4.49e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 497614587    7 IKKLCKKRGISVTMLENELGLPDNTIYQWKN--RMPSVERLQVVADYFNVSIDYL 59
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENgkREPSLETLKKLAEALGVSLDEL 55
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
7-59 2.44e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 46.36  E-value: 2.44e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 497614587     7 IKKLCKKRGISVTMLENELGLPDNTIYQWKN--RMPSVERLQVVADYFNVSIDYL 59
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENgkRKPSLETLKKLAKALGVSLDEL 56
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-64 6.02e-07

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 43.30  E-value: 6.02e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 497614587   1 MTLLDLIKKLCKKRGISVTMLENELGLPDNTIYQWKN--RMPSVERLQVVADYFNVSIDYLLGRTD 64
Cdd:COG1476    3 KKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENgkYNPSLELALKIARALGVSLEELFSLEE 68
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 7-64 7.21e-06

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: 40.35  E-value: 7.21e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 497614587    7 IKKLCKKRGISVTMLENELGLPDNTIYQWKN--RMPSVERLQVVADYFNVSIDYLLGRTD 64
Cdd:pfam12844   4 LRKAREERGLTQEELAERLGISRSQLSAIENgkSVPPAETLYKIAELLGVPANWLLQGEG 63
PHA01976 PHA01976
helix-turn-helix protein
 7-63 2.71e-04

helix-turn-helix protein


Pssm-ID: 177330 [Multi-domain]  Cd Length: 67  Bit Score: 36.47  E-value: 2.71e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 497614587   7 IKKLCKKRGISVTMLENELGLPDNTIYQWK--NRMPSVERLQVVADYFNVSIDYLLGRT 63
Cdd:PHA01976   7 LIKARNARAWSAPELSRRAGVRHSLIYDFEadKRLPNLKTLLRLADALGVTLDWLCGRC 65
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 7-64 2.18e-03

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: 33.67  E-value: 2.18e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 497614587    7 IKKLCKKRGISVTMLENELGLPDNTIYQWKNRMP---SVERLQVVADYFNVSIDYLLGRTD 64
Cdd:pfam13443   2 LRKLMADRGISKSDLARATGISRATLSRLRKGKPkrvSLDTLDKICDALGCQPGDLLEYVP 62
 
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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