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Conserved domains on  [gi|446716934|ref|WP_000794247|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Streptococcus]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11466506)

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

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List of domain hits

 Name Accession Description Interval E-value
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 20-95 4.80e-13

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: 59.26  E-value: 4.80e-13
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446716934 20 KEEILESDMRVAIMSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLAVVPLEHE 95
Cdd:COG3620   6 SRDVVTVSPDDTLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVLVVDD 81
 
Name Accession Description Interval E-value
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 20-95 4.80e-13

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: 59.26  E-value: 4.80e-13
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446716934 20 KEEILESDMRVAIMSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLAVVPLEHE 95
Cdd:COG3620   6 SRDVVTVSPDDTLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVLVVDD 81
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
35-88 1.56e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 54.06  E-value: 1.56e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 446716934   35 ELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLA 88
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLD 54
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 33-88 5.77e-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: 5.77e-11
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 446716934 33 MSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLA 88
Cdd:cd00093   1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLD 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 36-88 7.45e-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: 52.54  E-value: 7.45e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 446716934  36 LIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLA 88
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLD 53
couple_hipB TIGR03070
transcriptional regulator, y4mF family; Members of this family belong to a clade of ...
 32-87 3.02e-09

transcriptional regulator, y4mF family; Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems. [Regulatory functions, DNA interactions]


Pssm-ID: 213767 [Multi-domain]  Cd Length: 58  Bit Score: 48.42  E-value: 3.02e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 446716934  32 IMSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTL 87
Cdd:TIGR03070  3 IGILVRARRKALGLTQADLADLAGVGLRFIRDLENGKPTVRLDKVLRVLDALGLEL 58
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
26-88 1.11e-05

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 41.70  E-value: 1.11e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446716934  26 SDMRVAIMSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLA 88
Cdd:PRK09943   2 SDEGLAPGKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLS 64
 
Name Accession Description Interval E-value
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 20-95 4.80e-13

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: 59.26  E-value: 4.80e-13
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446716934 20 KEEILESDMRVAIMSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLAVVPLEHE 95
Cdd:COG3620   6 SRDVVTVSPDDTLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVLVVDD 81
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
28-87 2.05e-12

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 56.78  E-value: 2.05e-12
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446716934 28 MRVAIMSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTL 87
Cdd:COG1476   1 MKKKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSL 60
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
35-88 1.56e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 54.06  E-value: 1.56e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 446716934   35 ELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLA 88
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLD 54
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 33-88 5.77e-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: 5.77e-11
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 446716934 33 MSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLA 88
Cdd:cd00093   1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLD 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 36-88 7.45e-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: 52.54  E-value: 7.45e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 446716934  36 LIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLA 88
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLD 53
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
26-88 1.57e-10

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 52.31  E-value: 1.57e-10
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446716934 26 SDMRVAIMSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLA 88
Cdd:COG1396   2 STLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLD 64
couple_hipB TIGR03070
transcriptional regulator, y4mF family; Members of this family belong to a clade of ...
 32-87 3.02e-09

transcriptional regulator, y4mF family; Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems. [Regulatory functions, DNA interactions]


Pssm-ID: 213767 [Multi-domain]  Cd Length: 58  Bit Score: 48.42  E-value: 3.02e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 446716934  32 IMSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTL 87
Cdd:TIGR03070  3 IGILVRARRKALGLTQADLADLAGVGLRFIRDLENGKPTVRLDKVLRVLDALGLEL 58
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 36-88 8.32e-08

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: 8.32e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 446716934 36 LIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLA 88
Cdd:COG1813  17 IREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLA 69
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
26-88 1.11e-05

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 41.70  E-value: 1.11e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446716934  26 SDMRVAIMSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLA 88
Cdd:PRK09943   2 SDEGLAPGKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLS 64
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 29-90 1.56e-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: 39.52  E-value: 1.56e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446716934  29 RVAIMSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSP-QLDTVLKVLASLGKTLAVV 90
Cdd:pfam13744 16 KAQLARAIARLIEGRGLSQQEAAALLGIAQPKVSALLKGKLSRfSLDKLLDFLTALGQDVEIV 78
PHA01976 PHA01976
helix-turn-helix protein
 35-87 3.48e-04

helix-turn-helix protein


Pssm-ID: 177330 [Multi-domain]  Cd Length: 67  Bit Score: 35.70  E-value: 3.48e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 446716934 35 ELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTL 87
Cdd:PHA01976  6 QLIKARNARAWSAPELSRRAGVRHSLIYDFEADKRLPNLKTLLRLADALGVTL 58
PA5055 COG3636
Uncharacterized Zn-binding protein, DUF971 domain [Mobilome: prophages, transposons];
21-89 4.13e-04

Uncharacterized Zn-binding protein, DUF971 domain [Mobilome: prophages, transposons];


Pssm-ID: 442853  Cd Length: 92  Bit Score: 35.91  E-value: 4.13e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446716934 21 EEILESDMRVAIMSELIEARNEKGISQkkLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLGKTLAV 89
Cdd:COG3636  26 NAALEEGDPAELLAALGDVARARGMSQ--LAKEAGLSRESLYKALSPKGNPTLDTLLKVLKALGLRLTV 92
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 35-84 4.13e-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: 35.58  E-value: 4.13e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 446716934  35 ELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTS-PQLDTVLKVLASLG 84
Cdd:pfam13560  5 RLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGrPSPAVVERLARALG 55
PRK04140 PRK04140
transcriptional regulator;
30-78 2.45e-03

transcriptional regulator;


Pssm-ID: 235224 [Multi-domain]  Cd Length: 317  Bit Score: 35.22  E-value: 2.45e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 446716934  30 VAIMSELI-EARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLK 78
Cdd:PRK04140 124 VKIDGDVLrEAREELGLSLGELASELGVSRRTISKYENGGMNASIEVAIK 173
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
31-84 2.55e-03

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 33.58  E-value: 2.55e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 446716934 31 AIMSELIEARNEKGISQKKLEEMSGVSQPVIARMETGKT-SPQLDTVLKVLASLG 84
Cdd:COG3655   1 MIYVKLDELLAERGMTKKELAEATGISRATLSRLKNGKAkAVRLDTLEKICKALD 55
COG1395 COG1395
Predicted transcriptional regulator [Transcription];
30-78 2.99e-03

Predicted transcriptional regulator [Transcription];


Pssm-ID: 441005 [Multi-domain]  Cd Length: 313  Bit Score: 34.81  E-value: 2.99e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 446716934  30 VAIMSELI-EARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLK 78
Cdd:COG1395  125 VKIDGEKLrELREERGLSLGELASELGVSRRTISKYERGEMDASIEVALK 174
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 38-84 4.26e-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: 32.65  E-value: 4.26e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 446716934  38 EARNEKGISQKKLEEMSGVSQPVIARMETGKTSPQLDTVLKVLASLG 84
Cdd:pfam12844  6 KAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLG 52
PRK08154 PRK08154
anaerobic benzoate catabolism transcriptional regulator; Reviewed
 38-68 6.18e-03

anaerobic benzoate catabolism transcriptional regulator; Reviewed


Pssm-ID: 236167 [Multi-domain]  Cd Length: 309  Bit Score: 34.16  E-value: 6.18e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 446716934  38 EARNEKGISQKKLEEMSGVSQPVIARMETGK 68
Cdd:PRK08154  35 TLRARRGMSRKVLAQASGVSERYLAQLESGQ 65
PHA00542 PHA00542
putative Cro-like protein
 35-79 8.65e-03

putative Cro-like protein


Pssm-ID: 106954  Cd Length: 82  Bit Score: 32.46  E-value: 8.65e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 446716934 35 ELIEARNEKGISQKKLEEMSGVSQPVIARMETGKTS-PQLDTVLKV 79
Cdd:PHA00542 22 ELVCALIRAGWSQEQIADATDVSQPTICRIYSGRHKdPRYSVVEKL 67
 
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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