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Conserved domains on  [gi|1808878731|dbj|BCA52810|]
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transcriptional regulator (plasmid) [Bacteroides thetaiotaomicron]

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];
1-59 9.82e-09

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 48.84  E-value: 9.82e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1808878731   1 MYNITLPIlGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG-SLKLLFQVLNFY 59
Cdd:COG1396     1 MSTLKKAL-GERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNpSLETLLKLAKAL 59
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-59 9.82e-09

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 48.84  E-value: 9.82e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1808878731   1 MYNITLPIlGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG-SLKLLFQVLNFY 59
Cdd:COG1396     1 MSTLKKAL-GERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNpSLETLLKLAKAL 59
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
12-59 1.91e-07

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 44.82  E-value: 1.91e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1808878731   12 RLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG-SLKLLFQVLNFY 59
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKpSLETLKKLAKAL 49
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 10-59 2.24e-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: 44.47  E-value: 2.24e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1808878731  10 GTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG-SLKLLFQVLNFY 59
Cdd:cd00093     1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNpSLETLEKLAKAL 51
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 9-51 3.82e-07

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: 44.06  E-value: 3.82e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1808878731   9 LGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGGSLKL 51
Cdd:pfam13560   2 LGARLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGRPSP 44
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 8-57 5.82e-04

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: 37.23  E-value: 5.82e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1808878731   8 ILGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG---SLKLLFQVLN 57
Cdd:TIGR03830  65 LTGPEIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRpskALDKLLRLLD 117
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
10-96 1.65e-03

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 36.31  E-value: 1.65e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1808878731  10 GTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGK-GGSLKLLFQVLNFYSnyvfidLIFSEKFyliSNTEEDEAQKAN 88
Cdd:PRK09943    9 GKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKvSPAISTLQKLLKVYG------LSLSEFF---SEPEKPDEPQVV 79


                  ....*....
gi 1808878731  89 YN-SVIIEI 96
Cdd:PRK09943   80 INqDDLIEM 88
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-59 9.82e-09

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 48.84  E-value: 9.82e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1808878731   1 MYNITLPIlGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG-SLKLLFQVLNFY 59
Cdd:COG1396     1 MSTLKKAL-GERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNpSLETLLKLAKAL 59
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
9-72 2.02e-08

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 47.54  E-value: 2.02e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1808878731   9 LGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG-SLKLLFQVLNFYSnyVFIDLIFSEK 72
Cdd:COG1476     5 LGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNpSLELALKIARALG--VSLEELFSLE 67
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 9-45 1.61e-07

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: 45.31  E-value: 1.61e-07
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1808878731   9 LGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGK 45
Cdd:COG1813    13 YGERIREAREARGLSQEELAEKLGVSESTIRRIERGE 49
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
12-59 1.91e-07

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 44.82  E-value: 1.91e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1808878731   12 RLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG-SLKLLFQVLNFY 59
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKpSLETLKKLAKAL 49
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 10-59 2.24e-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: 44.47  E-value: 2.24e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1808878731  10 GTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG-SLKLLFQVLNFY 59
Cdd:cd00093     1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNpSLETLEKLAKAL 51
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 9-51 3.82e-07

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: 44.06  E-value: 3.82e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1808878731   9 LGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGGSLKL 51
Cdd:pfam13560   2 LGARLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGRPSP 44
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
7-55 3.99e-06

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 41.46  E-value: 3.99e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1808878731   7 PILGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGK----GGSLKLLFQV 55
Cdd:COG2944     5 PLTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRrkpsGAALKLLRLL 57
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 9-62 1.33e-05

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: 40.17  E-value: 1.33e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1808878731   9 LGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGGSLKLLFQVLNFYSNY 62
Cdd:COG1426     6 IGELLRQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDALPGPVYVRGFLRSY 59
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 9-65 1.67e-05

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: 40.77  E-value: 1.67e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1808878731   9 LGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKG----GSLKLLFQVLNFYSNYVFI 65
Cdd:COG3620    18 LGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRdptvSTLEKIAEALGKELSAVLV 78
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 13-59 5.07e-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: 38.29  E-value: 5.07e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1808878731  13 LKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG-SLKLLFQVLNFY 59
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREpSLETLKKLAEAL 48
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 8-57 5.82e-04

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: 37.23  E-value: 5.82e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1808878731   8 ILGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG---SLKLLFQVLN 57
Cdd:TIGR03830  65 LTGPEIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRpskALDKLLRLLD 117
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
10-96 1.65e-03

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 36.31  E-value: 1.65e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1808878731  10 GTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGK-GGSLKLLFQVLNFYSnyvfidLIFSEKFyliSNTEEDEAQKAN 88
Cdd:PRK09943    9 GKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKvSPAISTLQKLLKVYG------LSLSEFF---SEPEKPDEPQVV 79


                  ....*....
gi 1808878731  89 YN-SVIIEI 96
Cdd:PRK09943   80 INqDDLIEM 88
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 10-59 1.97e-03

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: 34.57  E-value: 1.97e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1808878731  10 GTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG-SLKLLFQVLNFY 59
Cdd:pfam12844   1 GERLRKAREERGLTQEELAERLGISRSQLSAIENGKSVpPAETLYKIAELL 51
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 9-57 2.94e-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: 34.51  E-value: 2.94e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1808878731   9 LGTRLKQIREHIGYSQAQLAEQLNCKQNAISNLELGKGG--SLKLLFQVLN 57
Cdd:pfam13744  19 LARAIARLIEGRGLSQQEAAALLGIAQPKVSALLKGKLSrfSLDKLLDFLT 69
 
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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