NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|446787829|ref|WP_000865085|]
View 

MULTISPECIES: helix-turn-helix transcriptional regulator [Escherichia]

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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
37-89 1.54e-11

Helix-turn-helix XRE-family like proteins;


:

Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 54.06  E-value: 1.54e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 446787829   37 MLYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATI 89
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSL 53
 
Name Accession Description Interval E-value
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
37-89 1.54e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 54.06  E-value: 1.54e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 446787829   37 MLYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATI 89
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSL 53
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 36-89 4.44e-11

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: 52.94  E-value: 4.44e-11
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....
gi 446787829 36 EMLYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATI 89
Cdd:cd00093   2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSL 55
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
36-89 3.37e-09

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 48.84  E-value: 3.37e-09
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....
gi 446787829 36 EMLYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATI 89
Cdd:COG1396  10 ERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSL 63
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 38-89 4.35e-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: 47.92  E-value: 4.35e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 446787829  38 LYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATI 89
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSL 52
PRK09726 PRK09726
type II toxin-antitoxin system antitoxin HipB;
41-86 2.51e-05

type II toxin-antitoxin system antitoxin HipB;


Pssm-ID: 182049  Cd Length: 88  Bit Score: 39.19  E-value: 2.51e-05
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 446787829 41 MREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACG 86
Cdd:PRK09726 20 VRQQNGWTQSELAKKIGIKQATISNFENNPDNTTLTTFFKILQSLE 65
 
Name Accession Description Interval E-value
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
37-89 1.54e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 54.06  E-value: 1.54e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 446787829   37 MLYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATI 89
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSL 53
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 36-89 4.44e-11

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: 52.94  E-value: 4.44e-11
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....
gi 446787829 36 EMLYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATI 89
Cdd:cd00093   2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSL 55
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
36-89 3.37e-09

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 48.84  E-value: 3.37e-09
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....
gi 446787829 36 EMLYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATI 89
Cdd:COG1396  10 ERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSL 63
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 38-89 4.35e-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: 47.92  E-value: 4.35e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 446787829  38 LYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATI 89
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSL 52
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
33-90 3.07e-08

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 45.99  E-value: 3.07e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 446787829 33 EMVEMLYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATIN 90
Cdd:COG1476   4 KLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLE 61
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 36-94 9.60e-08

Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain CBS pair) [Transcription];


Pssm-ID: 442838 [Multi-domain]  Cd Length: 95  Bit Score: 45.40  E-value: 9.60e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 446787829 36 EMLYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATINIHAV 94
Cdd:COG3620  20 EALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVLV 78
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 36-90 7.91e-07

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: 42.28  E-value: 7.91e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 446787829  36 EMLYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATIN 90
Cdd:pfam12844  2 ERLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPAN 56
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 36-89 1.01e-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: 42.23  E-value: 1.01e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....
gi 446787829 36 EMLYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACGATI 89
Cdd:COG1813  15 ERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISL 68
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 33-88 1.58e-05

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: 39.05  E-value: 1.58e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 446787829  33 EMVEMLYEMREKAGLTKSALAERMGLRPSAISRLESNPLG-ASMKTLTKYAQACGAT 88
Cdd:pfam13560  1 ELGARLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGrPSPAVVERLARALGVD 57
PRK09726 PRK09726
type II toxin-antitoxin system antitoxin HipB;
41-86 2.51e-05

type II toxin-antitoxin system antitoxin HipB;


Pssm-ID: 182049  Cd Length: 88  Bit Score: 39.19  E-value: 2.51e-05
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 446787829 41 MREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTKYAQACG 86
Cdd:PRK09726 20 VRQQNGWTQSELAKKIGIKQATISNFENNPDNTTLTTFFKILQSLE 65
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
29-80 3.81e-05

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 40.16  E-value: 3.81e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 446787829  29 DKELEMVEMLYEMREKAGLTKSALAERMGLRPSAISRLESNPLGASMKTLTK 80
Cdd:PRK09943   3 DEGLAPGKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQK 54
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 24-92 4.22e-05

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.


Pssm-ID: 433449 [Multi-domain]  Cd Length: 80  Bit Score: 38.36  E-value: 4.22e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446787829  24 GYEDADKELEMVE---MLYEMREKAGLTKSALAERMGLRPSAISRLESNPL-GASMKTLTKYAQACGATINIH 92
Cdd:pfam13744  6 GFEDAEELQAKAQlarAIARLIEGRGLSQQEAAALLGIAQPKVSALLKGKLsRFSLDKLLDFLTALGQDVEIV 78
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 29-69 1.24e-03

Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441035 [Multi-domain]  Cd Length: 71  Bit Score: 34.39  E-value: 1.24e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|.
gi 446787829 29 DKELEMVEMLYEMREKAGLTKSALAERMGLRPSAISRLESN 69
Cdd:COG1426   1 EALETIGELLRQAREAKGLSLEDVAERTKISVSYLEAIEEG 41
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
38-80 3.23e-03

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 33.19  E-value: 3.23e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....
gi 446787829 38 LYEMREKAGLTKSALAERMGLRPSAISRLESNPLGA-SMKTLTK 80
Cdd:COG3655   6 LDELLAERGMTKKELAEATGISRATLSRLKNGKAKAvRLDTLEK 49
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
40-78 6.76e-03

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 32.21  E-value: 6.76e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|..
gi 446787829 40 EMREKAGLTKSALAERMGLRPSAISRLES---NPLGASMKTL 78
Cdd:COG2944  13 ALRERLGLSQAEFAALLGVSVSTVRRWEQgrrKPSGAALKLL 54
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH