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Conserved domains on  [gi|652782523|ref|WP_027089434|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Bacillati]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 14364802)

helix-turn-helix (HTH) transcriptional regulator containing a XRE family HTH domain, such as the major virulence regulator Bacillus PlcR and Streptococcus thermophilus ComR, which positively controls competence for natural DNA transformation

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];
15-78 7.29e-10

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


:

Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 51.00  E-value: 7.29e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 652782523  15 LGLAIREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVDEYFYPAE 78
Cdd:COG1476    5 LGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLEE 68
DBD_HTH pfam18430
Putative DNA-binding domain; This is a putative DNA-binding protein dimerization domain found ...
 82-115 3.38e-09

Putative DNA-binding domain; This is a putative DNA-binding protein dimerization domain found bacterial proteins such as CD3330, (a transposon-related DNA-binding protein from Clostridium difficile). Crystal structure analysis suggests that CD3330 N-terminus is involved in dimer formation and also in crystal packing but the C-terminus is open to solvent.


:

Pssm-ID: 408227  Cd Length: 35  Bit Score: 48.45  E-value: 3.38e-09
                          10        20        30
                  ....*....|....*....|....*....|....
gi 652782523   82 KSTARRQIETSLDLLSDNELKIIQGTIDGILNSR 115
Cdd:pfam18430   1 KSTRRRQLEKLLDSFDDKELSIIEATAKGICKAK 34
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
15-78 7.29e-10

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 51.00  E-value: 7.29e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 652782523  15 LGLAIREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVDEYFYPAE 78
Cdd:COG1476    5 LGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLEE 68
DBD_HTH pfam18430
Putative DNA-binding domain; This is a putative DNA-binding protein dimerization domain found ...
 82-115 3.38e-09

Putative DNA-binding domain; This is a putative DNA-binding protein dimerization domain found bacterial proteins such as CD3330, (a transposon-related DNA-binding protein from Clostridium difficile). Crystal structure analysis suggests that CD3330 N-terminus is involved in dimer formation and also in crystal packing but the C-terminus is open to solvent.


Pssm-ID: 408227  Cd Length: 35  Bit Score: 48.45  E-value: 3.38e-09
                          10        20        30
                  ....*....|....*....|....*....|....
gi 652782523   82 KSTARRQIETSLDLLSDNELKIIQGTIDGILNSR 115
Cdd:pfam18430   1 KSTRRRQLEKLLDSFDDKELSIIEATAKGICKAK 34
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 16-72 6.06e-08

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: 46.01  E-value: 6.06e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 652782523  16 GLAIREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVDE 72
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDE 57
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
19-72 6.42e-07

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 43.28  E-value: 6.42e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 652782523    19 IREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVDE 72
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDE 55
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 15-72 2.08e-05

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: 39.43  E-value: 2.08e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 652782523   15 LGLAIREARERAGLSRNDLGDKVFYGERHIADIEN-TGSHPSFQLFHDLVTMFNISVDE 72
Cdd:pfam13560   2 LGARLRRLRERAGLSQEALARRLGVSRSTLSRLETgRRGRPSPAVVERLARALGVDGAE 60
TIGR00270 TIGR00270
TIGR00270 family protein; [Hypothetical proteins, Conserved]
 16-83 2.58e-05

TIGR00270 family protein; [Hypothetical proteins, Conserved]


Pssm-ID: 129371 [Multi-domain]  Cd Length: 154  Bit Score: 41.05  E-value: 2.58e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 652782523   16 GLAIREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVDEYFyPAEKVTKS 83
Cdd:TIGR00270  71 GIIIRREREKRGWSQEQLAKKIQEKESLIKKIENAEIEPEPKVVEKLEKLLKIKLREQV-PEIKIEKS 137
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
15-78 7.29e-10

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 51.00  E-value: 7.29e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 652782523  15 LGLAIREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVDEYFYPAE 78
Cdd:COG1476    5 LGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLEE 68
DBD_HTH pfam18430
Putative DNA-binding domain; This is a putative DNA-binding protein dimerization domain found ...
 82-115 3.38e-09

Putative DNA-binding domain; This is a putative DNA-binding protein dimerization domain found bacterial proteins such as CD3330, (a transposon-related DNA-binding protein from Clostridium difficile). Crystal structure analysis suggests that CD3330 N-terminus is involved in dimer formation and also in crystal packing but the C-terminus is open to solvent.


Pssm-ID: 408227  Cd Length: 35  Bit Score: 48.45  E-value: 3.38e-09
                          10        20        30
                  ....*....|....*....|....*....|....
gi 652782523   82 KSTARRQIETSLDLLSDNELKIIQGTIDGILNSR 115
Cdd:pfam18430   1 KSTRRRQLEKLLDSFDDKELSIIEATAKGICKAK 34
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
15-88 5.04e-08

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 46.53  E-value: 5.04e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 652782523  15 LGLAIREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVDEYFYPAEKVTKSTARRQ 88
Cdd:COG1396    8 LGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLSE 81
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 16-72 6.06e-08

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: 46.01  E-value: 6.06e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 652782523  16 GLAIREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVDE 72
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDE 57
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 15-72 2.18e-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: 44.54  E-value: 2.18e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 652782523  15 LGLAIREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVDE 72
Cdd:COG1813   13 YGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLAE 70
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
19-72 6.42e-07

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 43.28  E-value: 6.42e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 652782523    19 IREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVDE 72
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDE 55
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 15-72 2.08e-05

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: 39.43  E-value: 2.08e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 652782523   15 LGLAIREARERAGLSRNDLGDKVFYGERHIADIEN-TGSHPSFQLFHDLVTMFNISVDE 72
Cdd:pfam13560   2 LGARLRRLRERAGLSQEALARRLGVSRSTLSRLETgRRGRPSPAVVERLARALGVDGAE 60
TIGR00270 TIGR00270
TIGR00270 family protein; [Hypothetical proteins, Conserved]
 16-83 2.58e-05

TIGR00270 family protein; [Hypothetical proteins, Conserved]


Pssm-ID: 129371 [Multi-domain]  Cd Length: 154  Bit Score: 41.05  E-value: 2.58e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 652782523   16 GLAIREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVDEYFyPAEKVTKS 83
Cdd:TIGR00270  71 GIIIRREREKRGWSQEQLAKKIQEKESLIKKIENAEIEPEPKVVEKLEKLLKIKLREQV-PEIKIEKS 137
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 19-72 2.62e-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: 39.06  E-value: 2.62e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 652782523   19 IREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVDE 72
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDE 54
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 14-71 4.62e-04

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: 36.54  E-value: 4.62e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 652782523  14 PLGLAIREARERAGLSRNDLGDKVFYGERHIADIENTGSHPSFQLFHDLVTMFNISVD 71
Cdd:COG3620   17 TLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELS 74
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 15-49 8.32e-04

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: 35.55  E-value: 8.32e-04
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 652782523  15 LGLAIREARERAGLSRNDLGDKVFYGERHIADIEN 49
Cdd:COG1426    6 IGELLRQAREAKGLSLEDVAERTKISVSYLEAIEE 40
 
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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