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Conserved domains on  [gi|446044974|ref|WP_000122829|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Gammaproteobacteria]

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];
1-63 1.32e-15

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 65.79  E-value: 1.32e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446044974   1 MSYVTEQILESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSL 63
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-63 1.32e-15

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 65.79  E-value: 1.32e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446044974   1 MSYVTEQILESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSL 63
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
12-63 1.47e-12

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 57.14  E-value: 1.47e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 446044974    12 LREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSL 53
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 10-63 3.96e-12

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: 56.02  E-value: 3.96e-12
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 446044974  10 ESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:cd00093    2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSL 55
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 12-63 1.33e-11

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: 54.85  E-value: 1.33e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 446044974   12 LREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSL 52
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
1-63 2.61e-06

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 43.63  E-value: 2.61e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446044974   1 MSYVTEQILESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:PRK09943   1 MSDEGLAPGKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSL 63
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-63 1.32e-15

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 65.79  E-value: 1.32e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446044974   1 MSYVTEQILESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSL 63
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
12-63 1.47e-12

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 57.14  E-value: 1.47e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 446044974    12 LREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSL 53
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 1-63 1.74e-12

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: 57.26  E-value: 1.74e-12
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446044974   1 MSYVTEQILESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:COG1813    6 TGELVEDYGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISL 68
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 10-63 3.96e-12

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: 56.02  E-value: 3.96e-12
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 446044974  10 ESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:cd00093    2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSL 55
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
5-63 1.03e-11

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 55.24  E-value: 1.03e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 446044974   5 TEQILESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:COG1476    2 KKKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSL 60
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 12-63 1.33e-11

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: 54.85  E-value: 1.33e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 446044974   12 LREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSL 52
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 5-67 1.84e-10

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: 52.71  E-value: 1.84e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446044974   5 TEQILESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLELLVAP 67
Cdd:COG3620   15 DDTLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVL 77
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 12-61 3.54e-08

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: 46.37  E-value: 3.54e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 446044974   12 LREARVRKGFSQRELSARSGVPQSHISKIESGSVDL-RISSLIALARVLDL 61
Cdd:pfam13560   6 LRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGRpSPAVVERLARALGV 56
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 12-62 2.53e-07

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: 44.02  E-value: 2.53e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 446044974  12 LREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISS------LIALARVLDLE 62
Cdd:COG1426   10 LRQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDALPGPvyvrgfLRSYARALGLD 66
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 10-61 9.13e-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: 42.66  E-value: 9.13e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 446044974   10 ESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDL 61
Cdd:pfam12844   2 ERLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGV 53
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
1-63 2.61e-06

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 43.63  E-value: 2.61e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446044974   1 MSYVTEQILESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLDLEL 63
Cdd:PRK09943   1 MSDEGLAPGKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSL 63
PRK08154 PRK08154
anaerobic benzoate catabolism transcriptional regulator; Reviewed
 10-67 3.96e-04

anaerobic benzoate catabolism transcriptional regulator; Reviewed


Pssm-ID: 236167 [Multi-domain]  Cd Length: 309  Bit Score: 38.01  E-value: 3.96e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446044974  10 ESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLD--LELLVAP 67
Cdd:PRK08154  31 ERVRTLRARRGMSRKVLAQASGVSERYLAQLESGQGNVSILLLRRVARALGcsLADLLGD 90
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 6-60 9.35e-04

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


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 35.17  E-value: 9.35e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 446044974   6 EQILESLrearvrkGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVLD 60
Cdd:COG3093   15 EEFLEPL-------GLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFG 62
PHA00542 PHA00542
putative Cro-like protein
 14-63 1.08e-03

putative Cro-like protein


Pssm-ID: 106954  Cd Length: 82  Bit Score: 35.16  E-value: 1.08e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 446044974  14 EARVRKGFSQRELSARSGVPQSHISKIESG-SVDLRISSLIALARvLDLEL 63
Cdd:PHA00542  25 CALIRAGWSQEQIADATDVSQPTICRIYSGrHKDPRYSVVEKLRH-LVLNL 74
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 12-69 1.28e-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: 34.44  E-value: 1.28e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446044974   12 LREARVRKGFSQRELSARSGVPQSHISKIESGSVD-LRISSLIALARVLDL---ELLVAPKK 69
Cdd:pfam13443   2 LRKLMADRGISKSDLARATGISRATLSRLRKGKPKrVSLDTLDKICDALGCqpgDLLEYVPD 63
HTH_25 pfam13413
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 12-43 2.45e-03

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


Pssm-ID: 433187 [Multi-domain]  Cd Length: 62  Bit Score: 33.62  E-value: 2.45e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 446044974   12 LREARVRKGFSQRELSARSGVPQSHISKIESG 43
Cdd:pfam13413   2 LRAAREARGLSLEDVAERTKIRPRYLEALEED 33
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 5-59 4.43e-03

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 34.44  E-value: 4.43e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 446044974   5 TEQILESLREARVRKGFSQRELSARSGVPQSHISKIESGSVDLRISSLIALARVL 59
Cdd:PRK09706   3 NLTLGQRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKNLFALAKAL 57
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
12-43 6.50e-03

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 32.60  E-value: 6.50e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 446044974  12 LREARVRKGFSQRELSARSGVPQSHISKIESG 43
Cdd:COG2944   11 IRALRERLGLSQAEFAALLGVSVSTVRRWEQG 42
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 12-63 7.82e-03

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: 32.58  E-value: 7.82e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 446044974   12 LREARVRKGFSQRELSARSGVPQSHISKIESGSVD-LRISSLIALARVLDLEL 63
Cdd:pfam13744  23 IARLIEGRGLSQQEAAALLGIAQPKVSALLKGKLSrFSLDKLLDFLTALGQDV 75
 
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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