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Conserved domains on  [gi|918754610|ref|WP_052607476|]
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helix-turn-helix transcriptional regulator [Enterococcus italicus]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 10007659)

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
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
1-66 1.70e-20

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


:

Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 82.50  E-value: 1.70e-20
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 918754610   1 MISLKLNELLKKREITILQLSEQTGISRSTLNSMVNGVTKGIQFTTLDTLCESLDCSVSDLIEYIP 66
Cdd:COG3655    1 MIYVKLDELLAERGMTKKELAEATGISRATLSRLKNGKAKAVRLDTLEKICKALDCQPGDLLEYVP 66
 
Name Accession Description Interval E-value
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
1-66 1.70e-20

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 82.50  E-value: 1.70e-20
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 918754610   1 MISLKLNELLKKREITILQLSEQTGISRSTLNSMVNGVTKGIQFTTLDTLCESLDCSVSDLIEYIP 66
Cdd:COG3655    1 MIYVKLDELLAERGMTKKELAEATGISRATLSRLKNGKAKAVRLDTLEKICKALDCQPGDLLEYVP 66
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 5-66 1.60e-16

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: 71.80  E-value: 1.60e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 918754610    5 KLNELLKKREITILQLSEQTGISRSTLNSMVNGVTKGIQFTTLDTLCESLDCSVSDLIEYIP 66
Cdd:pfam13443   1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKPKRVSLDTLDKICDALGCQPGDLLEYVP 62
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
5-61 9.79e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 47.51  E-value: 9.79e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 918754610     5 KLNELLKKREITILQLSEQTGISRSTLNSMVNGVTKgIQFTTLDTLCESLDCSVSDL 61
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRK-PSLETLKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 5-61 3.21e-07

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: 46.39  E-value: 3.21e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 918754610   5 KLNELLKKREITILQLSEQTGISRSTLNSMVNGVTKgIQFTTLDTLCESLDCSVSDL 61
Cdd:cd00093    3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRN-PSLETLEKLAKALGVSLDEL 58
 
Name Accession Description Interval E-value
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
1-66 1.70e-20

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 82.50  E-value: 1.70e-20
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 918754610   1 MISLKLNELLKKREITILQLSEQTGISRSTLNSMVNGVTKGIQFTTLDTLCESLDCSVSDLIEYIP 66
Cdd:COG3655    1 MIYVKLDELLAERGMTKKELAEATGISRATLSRLKNGKAKAVRLDTLEKICKALDCQPGDLLEYVP 66
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 5-66 1.60e-16

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: 71.80  E-value: 1.60e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 918754610    5 KLNELLKKREITILQLSEQTGISRSTLNSMVNGVTKGIQFTTLDTLCESLDCSVSDLIEYIP 66
Cdd:pfam13443   1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKPKRVSLDTLDKICDALGCQPGDLLEYVP 62
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
5-61 9.79e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 47.51  E-value: 9.79e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 918754610     5 KLNELLKKREITILQLSEQTGISRSTLNSMVNGVTKgIQFTTLDTLCESLDCSVSDL 61
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRK-PSLETLKKLAKALGVSLDEL 56
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-63 1.20e-07

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 48.07  E-value: 1.20e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 918754610   1 MISLKLNELLKKREITILQLSEQTGISRSTLNSMVNGVTKgIQFTTLDTLCESLDCSVSDLIE 63
Cdd:COG1396    7 ALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRN-PSLETLLKLAKALGVSLDELLG 68
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 5-61 3.21e-07

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: 46.39  E-value: 3.21e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 918754610   5 KLNELLKKREITILQLSEQTGISRSTLNSMVNGVTKgIQFTTLDTLCESLDCSVSDL 61
Cdd:cd00093    3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRN-PSLETLEKLAKALGVSLDEL 58
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-64 4.85e-06

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 43.30  E-value: 4.85e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 918754610   1 MISLKLNELLKKREITILQLSEQTGISRSTLNSMVNGVTKgIQFTTLDTLCESLDCSVSDLIEY 64
Cdd:COG1476    4 KLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYN-PSLELALKIARALGVSLEELFSL 66
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 6-61 3.04e-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: 40.60  E-value: 3.04e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 918754610    6 LNELLKKREITILQLSEQTGISRSTLNSMVNGVTKgIQFTTLDTLCESLDCSVSDL 61
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKRE-PSLETLKKLAEALGVSLDEL 55
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 8-37 1.43e-03

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 36.71  E-value: 1.43e-03
                         10        20        30
                 ....*....|....*....|....*....|
gi 918754610   8 ELLKKREITILQLSEQTGISRSTLNSMVNG 37
Cdd:COG3093   16 EFLEPLGLSQTELAKALGVSRQRISEILNG 45
HTH_24 pfam13412
Winged helix-turn-helix DNA-binding;
6-36 9.94e-03

Winged helix-turn-helix DNA-binding;


Pssm-ID: 404317 [Multi-domain]  Cd Length: 45  Bit Score: 33.18  E-value: 9.94e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 918754610    6 LNELLKKREITILQLSEQTGISRSTLNSMVN 36
Cdd:pfam13412   7 LNLLQENPRISQRELAERLGLSPSTVNRRLK 37
 
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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