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Conserved domains on  [gi|1079275338|ref|WP_070103703|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Lachnospiraceae]

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];
1-74 2.09e-15

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 65.40  E-value: 2.09e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1079275338   1 MISEKIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYELLGENEIERKAVDLE 74
Cdd:COG1396     7 ALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLS 80
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-74 2.09e-15

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 65.40  E-value: 2.09e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1079275338   1 MISEKIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYELLGENEIERKAVDLE 74
Cdd:COG1396     7 ALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLS 80
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 3-60 4.21e-13

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: 58.72  E-value: 4.21e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1079275338   3 SEKIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYEL 60
Cdd:cd00093     1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
5-60 1.05e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 55.22  E-value: 1.05e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1079275338    5 KIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYEL 60
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 6-60 1.71e-10

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: 52.16  E-value: 1.71e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1079275338   6 IFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYEL 60
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 1-106 1.39e-07

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 46.39  E-value: 1.39e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1079275338   1 MISEKIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYELL--GENEIERKAVDLEMCAA 78
Cdd:PRK09706    5 TLGQRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKNLFALAKALQCSPTWLLfgDEDKQPTPPVPLNQPVE 84

                          90       100
                  ....*....|....*....|....*....
gi 1079275338  79 NTE-EKMILEGFRNLPDRKKERILGYLAA 106
Cdd:PRK09706   85 LSEdQKELLELFDALPESEQDAQLSEMRA 113
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-74 2.09e-15

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 65.40  E-value: 2.09e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1079275338   1 MISEKIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYELLGENEIERKAVDLE 74
Cdd:COG1396     7 ALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLS 80
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 3-60 4.21e-13

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: 58.72  E-value: 4.21e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1079275338   3 SEKIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYEL 60
Cdd:cd00093     1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-65 6.93e-13

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 58.32  E-value: 6.93e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1079275338   1 MISEKIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYELLGENE 65
Cdd:COG1476     4 KLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLEE 68
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
1-61 7.14e-12

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 55.92  E-value: 7.14e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1079275338   1 MISEKIFELILRNGVTQKEFSEETGISQSTISDWKR-KGTNPSADKILKICEVLKVTPYELL 61
Cdd:COG3655     1 MIYVKLDELLAERGMTKKELAEATGISRATLSRLKNgKAKAVRLDTLEKICKALDCQPGDLL 62
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
5-60 1.05e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 55.22  E-value: 1.05e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1079275338    5 KIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYEL 60
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 6-60 1.71e-10

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: 52.16  E-value: 1.71e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1079275338   6 IFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYEL 60
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
YdaS COG4197
DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];
17-60 5.22e-08

DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];


Pssm-ID: 443351  Cd Length: 68  Bit Score: 46.06  E-value: 5.22e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1079275338  17 QKEFSEETGISQSTISDWKRKGTNPSADKILKICEVL--KVTPYEL 60
Cdd:COG4197    11 QSALARALGVSQQAVSQWLNGKRRVPAERCLAIERATggAVTREEL 56
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 5-61 8.53e-08

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: 45.22  E-value: 8.53e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1079275338   5 KIFELILRNGVTQKEFSEETGISQSTISD-WKRKGTNPSADKILKICEVLKVTPYELL 61
Cdd:pfam13443   1 KLRKLMADRGISKSDLARATGISRATLSRlRKGKPKRVSLDTLDKICDALGCQPGDLL 58
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 1-106 1.39e-07

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 46.39  E-value: 1.39e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1079275338   1 MISEKIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYELL--GENEIERKAVDLEMCAA 78
Cdd:PRK09706    5 TLGQRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKNLFALAKALQCSPTWLLfgDEDKQPTPPVPLNQPVE 84

                          90       100
                  ....*....|....*....|....*....
gi 1079275338  79 NTE-EKMILEGFRNLPDRKKERILGYLAA 106
Cdd:PRK09706   85 LSEdQKELLELFDALPESEQDAQLSEMRA 113
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 2-59 1.62e-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: 44.93  E-value: 1.62e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1079275338   2 ISEKIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYE 59
Cdd:COG1813    13 YGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLAE 70
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 4-61 2.05e-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: 44.20  E-value: 2.05e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1079275338   4 EKIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYELL 61
Cdd:pfam12844   2 ERLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLL 59
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 2-53 3.98e-06

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: 41.93  E-value: 3.98e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1079275338   2 ISEKIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVL 53
Cdd:COG3620    18 LGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEAL 69
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
1-51 5.90e-06

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 40.69  E-value: 5.90e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1079275338   1 MISEKIFELILRNGVTQKEFSEETGISQSTISDWKRKGTNPS--ADKILKICE 51
Cdd:COG2944     6 LTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSgaALKLLRLLE 58
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 12-60 2.01e-04

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: 36.74  E-value: 2.01e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1079275338  12 RNGVTQKEFSEETGISQSTISDWKR-KGTNPSADKILKICEVLKVTPYEL 60
Cdd:pfam13560  12 RAGLSQEALARRLGVSRSTLSRLETgRRGRPSPAVVERLARALGVDGAER 61
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 8-57 2.16e-04

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


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 37.10  E-value: 2.16e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1079275338   8 ELILRNGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTP 57
Cdd:COG3093    16 EFLEPLGLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTSA 65
Phage_CI_repr pfam07022
Bacteriophage CI repressor helix-turn-helix domain; This family consists of several phage CI ...
 16-65 1.01e-03

Bacteriophage CI repressor helix-turn-helix domain; This family consists of several phage CI repressor proteins and related bacterial sequences. The CI repressor is known to function as a transcriptional switch, determining whether transcription is lytic or lysogenic.


Pssm-ID: 311152  Cd Length: 65  Bit Score: 35.00  E-value: 1.01e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1079275338  16 TQKEFSEETGISQSTISDWKRKGTNPsADKILKICEVLKVTPYELLGENE 65
Cdd:pfam07022  14 SRQELADHLGVSKSTLSTWYTRDSFP-AELVVRCALETGVSLEWLATGDG 62
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 5-32 4.17e-03

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


Pssm-ID: 238042 [Multi-domain]  Cd Length: 78  Bit Score: 33.43  E-value: 4.17e-03
                          10        20
                  ....*....|....*....|....*...
gi 1079275338   5 KIFELILRNGVTQKEFSEETGISQSTIS 32
Cdd:cd00090    11 RILRLLLEGPLTVSELAERLGLSQSTVS 38
HTH_28 pfam13518
Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is ...
 5-37 4.47e-03

Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is likely to be DNA-binding.


Pssm-ID: 463908 [Multi-domain]  Cd Length: 52  Bit Score: 32.95  E-value: 4.47e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1079275338   5 KIFELILRnGVTQKEFSEETGISQSTISDWKRK 37
Cdd:pfam13518   4 KIVLLALE-GESIKEAARLFGISRSTVYRWIRR 35
PRK13890 PRK13890
conjugal transfer protein TrbA; Provisional
 1-73 4.65e-03

conjugal transfer protein TrbA; Provisional


Pssm-ID: 237547 [Multi-domain]  Cd Length: 120  Bit Score: 33.96  E-value: 4.65e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1079275338   1 MISEKIFELILR----NGVTQKEFSEETGISQSTISDWKRKGTNPSADKILKICEVLKVTPYELLGENEIERKAVDL 73
Cdd:PRK13890    1 MYNYIFFTNVLRlldeRHMTKKELSERSGVSISFLSDLTTGKANPSLKVMEAIADALETPLPLLLESTDLDKEALDA 77
 
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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