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Conserved domains on  [gi|506241718|ref|WP_015761493|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Eggerthella]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 10787697)

helix-turn-helix (HTH) transcriptional regulator containing a XRE (Xenobiotic Response Element) family HTH domain may act as a transcriptional regulator that controls the expression of genes involved in stress response

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  10473770|2644244
SCOP:  4000362

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-65 1.04e-18

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


:

Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 78.74  E-value: 1.04e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 506241718   1 MSFRDNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDLVRGD 65
Cdd:COG1476    3 KKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLE 67
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-65 1.04e-18

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 78.74  E-value: 1.04e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 506241718   1 MSFRDNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDLVRGD 65
Cdd:COG1476    3 KKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLE 67
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 5-61 2.04e-14

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: 66.42  E-value: 2.04e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 506241718   5 DNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDL 61
Cdd:cd00093    2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
6-61 7.13e-13

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 62.15  E-value: 7.13e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 506241718     6 NLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDL 61
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 7-61 1.54e-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: 58.71  E-value: 1.54e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 506241718    7 LQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDL 61
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
PHA01976 PHA01976
helix-turn-helix protein
 1-64 3.70e-08

helix-turn-helix protein


Pssm-ID: 177330 [Multi-domain]  Cd Length: 67  Bit Score: 49.57  E-value: 3.70e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 506241718   1 MSFRDNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDLVRG 64
Cdd:PHA01976   1 MSFAIQLIKARNARAWSAPELSRRAGVRHSLIYDFEADKRLPNLKTLLRLADALGVTLDWLCGR 64
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 7-52 1.67e-03

putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.


Pssm-ID: 274805 [Multi-domain]  Cd Length: 127  Bit Score: 38.00  E-value: 1.67e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 506241718    7 LQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPE--MDKLLKLCD 52
Cdd:TIGR03830  70 IRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSkaLDKLLRLLD 117
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-65 1.04e-18

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 78.74  E-value: 1.04e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 506241718   1 MSFRDNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDLVRGD 65
Cdd:COG1476    3 KKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLE 67
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-65 4.18e-16

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 71.95  E-value: 4.18e-16
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 506241718   1 MSFRDNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDLVRGD 65
Cdd:COG1396    6 KALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGA 70
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 5-61 2.04e-14

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: 66.42  E-value: 2.04e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 506241718   5 DNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDL 61
Cdd:cd00093    2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
6-61 7.13e-13

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 62.15  E-value: 7.13e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 506241718     6 NLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDL 61
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 7-61 1.54e-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: 58.71  E-value: 1.54e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 506241718    7 LQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDL 61
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
2-63 6.91e-11

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 57.08  E-value: 6.91e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 506241718   2 SFRDNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEK-SYPEMDKLLKLCDLFECTLDDLVR 63
Cdd:COG3655    1 MIYVKLDELLAERGMTKKELAEATGISRATLSRLKNGKaKAVRLDTLEKICKALDCQPGDLLE 63
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 1-62 1.88e-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: 56.95  E-value: 1.88e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 506241718   1 MSFRDNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDLV 62
Cdd:COG3620   16 DTLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVL 77
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 3-60 2.89e-10

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: 55.33  E-value: 2.89e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 506241718   3 FRDNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDD 60
Cdd:COG1813   13 YGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLAE 70
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 6-62 6.19e-10

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: 54.47  E-value: 6.19e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 506241718    6 NLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKS-YPEMDKLLKLCDLFECTLDDLV 62
Cdd:pfam13443   1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKPkRVSLDTLDKICDALGCQPGDLL 58
PHA01976 PHA01976
helix-turn-helix protein
 1-64 3.70e-08

helix-turn-helix protein


Pssm-ID: 177330 [Multi-domain]  Cd Length: 67  Bit Score: 49.57  E-value: 3.70e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 506241718   1 MSFRDNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDLVRG 64
Cdd:PHA01976   1 MSFAIQLIKARNARAWSAPELSRRAGVRHSLIYDFEADKRLPNLKTLLRLADALGVTLDWLCGR 64
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 7-64 5.60e-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: 46.13  E-value: 5.60e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 506241718    7 LQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDLVRG 64
Cdd:pfam12844   4 LRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLLQG 61
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 2-73 4.34e-06

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 45.61  E-value: 4.34e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 506241718   2 SFRDNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDLVRGDlTGRAPDP 73
Cdd:PRK09706   5 TLGQRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKNLFALAKALQCSPTWLLFGD-EDKQPTP 75
COG1395 COG1395
Predicted transcriptional regulator [Transcription];
5-95 1.95e-04

Predicted transcriptional regulator [Transcription];


Pssm-ID: 441005 [Multi-domain]  Cd Length: 313  Bit Score: 42.52  E-value: 1.95e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506241718   5 DNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFEctlDDLVRG-DL-----TGRAPDPTRSLP 78
Cdd:COG1395  130 EKLRELREERGLSLGELASELGVSRRTISKYERGEMDASIEVALKLEEILG---EPIVKPiDIlegaeDLEEAEPTPEDP 206

                         90       100
                 ....*....|....*....|.
gi 506241718  79 EDAPPVDAC---GYD-EHMRR 95
Cdd:COG1395  207 EEEEILEVLsrlGFDvHPTKR 227
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
10-50 2.88e-04

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 38.38  E-value: 2.88e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 506241718  10 LRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPE--MDKLLKL 50
Cdd:COG2944   14 LRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSgaALKLLRL 56
PRK04140 PRK04140
transcriptional regulator;
5-83 1.16e-03

transcriptional regulator;


Pssm-ID: 235224 [Multi-domain]  Cd Length: 317  Bit Score: 40.23  E-value: 1.16e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506241718   5 DNLQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPEMDKLLKLCDLFEctlDDLVRG-DLTGRAP--DPTRSLPEDA 81
Cdd:PRK04140 129 DVLREAREELGLSLGELASELGVSRRTISKYENGGMNASIEVAIKLEEILD---VPLTKPiDILEKVRddEVTPEDPEED 205


                 ..
gi 506241718  82 PP 83
Cdd:PRK04140 206 PF 207
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 7-61 1.42e-03

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: 36.35  E-value: 1.42e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 506241718    7 LQHLRDTRNMTQSELAMLVGVSRQSVAKWEA-EKSYPEMDKLLKLCDLFECTLDDL 61
Cdd:pfam13560   6 LRRLRERAGLSQEALARRLGVSRSTLSRLETgRRGRPSPAVVERLARALGVDGAER 61
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 7-52 1.67e-03

putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.


Pssm-ID: 274805 [Multi-domain]  Cd Length: 127  Bit Score: 38.00  E-value: 1.67e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 506241718    7 LQHLRDTRNMTQSELAMLVGVSRQSVAKWEAEKSYPE--MDKLLKLCD 52
Cdd:TIGR03830  70 IRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSkaLDKLLRLLD 117
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 2-83 4.67e-03

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 38.56  E-value: 4.67e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 506241718   2 SFRDNLQHLRDTRNMTQSELAML-----VGVSRQSVAKWEAEKSYPEMDKLLKLCDLFECTLDDLVRGDLTGRAPDPTRS 76
Cdd:PRK13355   3 TFAERLKQAMKARGLKQEDLVHAaeargVKLGKSHISQYVSGKTGPRRDVLPFLAAILGVSEDWLLGGESPADQESDASA 82


                 ....*..
gi 506241718  77 LPEDAPP 83
Cdd:PRK13355  83 VVESAPN 89
 
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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