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Conserved domains on  [gi|2769609379|ref|WP_366523512|]
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helix-turn-helix transcriptional regulator [uncultured Sulfitobacter sp.]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 10611674)

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
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 32-85 3.79e-08

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: 45.98  E-value: 3.79e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2769609379  32 IAMQLRALRDVRGMTQDDVAQATGMTTVKIAQMESLVGAFPGIKDLERFADVCG 85
Cdd:pfam13560   2 LGARLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGRPSPAVVERLARALG 55
 
Name Accession Description Interval E-value
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 32-85 3.79e-08

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: 45.98  E-value: 3.79e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2769609379  32 IAMQLRALRDVRGMTQDDVAQATGMTTVKIAQMESLVGAFPGIKDLERFADVCG 85
Cdd:pfam13560   2 LGARLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGRPSPAVVERLARALG 55
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 35-89 4.18e-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: 43.31  E-value: 4.18e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2769609379  35 QLRALRDVRGMTQDDVAQATGMTTVKIAQMESlvG-AFPGIKDLERFADVCGGRIE 89
Cdd:cd00093     3 RLKELRKEKGLTQEELAEKLGVSRSTISRIEN--GkRNPSLETLEKLAKALGVSLD 56
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
28-85 5.55e-07

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 43.83  E-value: 5.55e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2769609379  28 LKSTIAMQLRALRDVRGMTQDDVAQATGMTTVKIAQMESlvG-AFPGIKDLERFADVCG 85
Cdd:COG1396     4 LKKALGERLRELRKARGLTQEELAERLGVSRSTISRIER--GrRNPSLETLLKLAKALG 60
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
36-89 2.64e-06

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 41.35  E-value: 2.64e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 2769609379   36 LRALRDVRGMTQDDVAQATGMTTVKIAQMESlvG-AFPGIKDLERFADVCGGRIE 89
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIEN--GkRKPSLETLKKLAKALGVSLD 54
PRK08154 PRK08154
anaerobic benzoate catabolism transcriptional regulator; Reviewed
 7-92 4.99e-04

anaerobic benzoate catabolism transcriptional regulator; Reviewed


Pssm-ID: 236167 [Multi-domain]  Cd Length: 309  Bit Score: 37.63  E-value: 4.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2769609379   7 SFRERMDIARPDVVERRKRNCLKSTIAMQLRALRDVRGMTQDDVAQATGMTTVKIAQMESLVGAFpGIKDLERFADVCGG 86
Cdd:PRK08154    4 ADAGPTADATAMTGAAAEEAPFLAALGERVRTLRARRGMSRKVLAQASGVSERYLAQLESGQGNV-SILLLRRVARALGC 82


                  ....*.
gi 2769609379  87 RIEVMI 92
Cdd:PRK08154   83 SLADLL 88
 
Name Accession Description Interval E-value
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 32-85 3.79e-08

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: 45.98  E-value: 3.79e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2769609379  32 IAMQLRALRDVRGMTQDDVAQATGMTTVKIAQMESLVGAFPGIKDLERFADVCG 85
Cdd:pfam13560   2 LGARLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGRPSPAVVERLARALG 55
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 35-89 4.18e-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: 43.31  E-value: 4.18e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2769609379  35 QLRALRDVRGMTQDDVAQATGMTTVKIAQMESlvG-AFPGIKDLERFADVCGGRIE 89
Cdd:cd00093     3 RLKELRKEKGLTQEELAEKLGVSRSTISRIEN--GkRNPSLETLEKLAKALGVSLD 56
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
28-85 5.55e-07

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 43.83  E-value: 5.55e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2769609379  28 LKSTIAMQLRALRDVRGMTQDDVAQATGMTTVKIAQMESlvG-AFPGIKDLERFADVCG 85
Cdd:COG1396     4 LKKALGERLRELRKARGLTQEELAERLGVSRSTISRIER--GrRNPSLETLLKLAKALG 60
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
36-89 2.64e-06

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 41.35  E-value: 2.64e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 2769609379   36 LRALRDVRGMTQDDVAQATGMTTVKIAQMESlvG-AFPGIKDLERFADVCGGRIE 89
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIEN--GkRKPSLETLKKLAKALGVSLD 54
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
29-95 2.67e-06

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 41.37  E-value: 2.67e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2769609379  29 KSTIAMQLRALRDVRGMTQDDVAQATGMTTVKIAQMESlvG-AFPGIKDLERFADVCGGRIEVMIWPD 95
Cdd:COG1476     2 KKKLGNRLKELRKERGLTQEELAELLGVSRQTISAIEN--GkYNPSLELALKIARALGVSLEELFSLE 67
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 36-89 1.67e-04

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: 36.36  E-value: 1.67e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2769609379  36 LRALRDVRGMTQDDVAQATGMTTVKIAQMESLVGAfPGIKDLERFADVCGGRIE 89
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKRE-PSLETLKKLAEALGVSLD 53
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 13-92 2.65e-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: 36.92  E-value: 2.65e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2769609379  13 DIARPDVVERRKRNclksTIAMQLRALRDVRGMTQDDVAQATGMTTVKIAQMESLvGAFPGIKDLERFADVCGGRIEVMI 92
Cdd:COG3620     3 DLMSRDVVTVSPDD----TLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESG-KRDPTVSTLEKIAEALGKELSAVL 77
PRK08154 PRK08154
anaerobic benzoate catabolism transcriptional regulator; Reviewed
 7-92 4.99e-04

anaerobic benzoate catabolism transcriptional regulator; Reviewed


Pssm-ID: 236167 [Multi-domain]  Cd Length: 309  Bit Score: 37.63  E-value: 4.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2769609379   7 SFRERMDIARPDVVERRKRNCLKSTIAMQLRALRDVRGMTQDDVAQATGMTTVKIAQMESLVGAFpGIKDLERFADVCGG 86
Cdd:PRK08154    4 ADAGPTADATAMTGAAAEEAPFLAALGERVRTLRARRGMSRKVLAQASGVSERYLAQLESGQGNV-SILLLRRVARALGC 82


                  ....*.
gi 2769609379  87 RIEVMI 92
Cdd:PRK08154   83 SLADLL 88
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 31-65 1.80e-03

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: 34.39  E-value: 1.80e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 2769609379  31 TIAMQLRALRDVRGMTQDDVAQATGMTTVKIAQME 65
Cdd:COG1426     5 TIGELLRQAREAKGLSLEDVAERTKISVSYLEAIE 39
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 28-92 2.34e-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: 34.12  E-value: 2.34e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2769609379  28 LKSTIAMQLRALRDVRGMTQDDVAQATGMTTVKIAQMESLVGAFPGIKDLERFADVCGGRIEVMI 92
Cdd:pfam13744  15 AKAQLARAIARLIEGRGLSQQEAAALLGIAQPKVSALLKGKLSRFSLDKLLDFLTALGQDVEIVV 79
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 36-66 8.37e-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: 32.26  E-value: 8.37e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2769609379  36 LRALRDVRGMTQDDVAQATGMTTVKIAQMES 66
Cdd:pfam12844   4 LRKAREERGLTQEELAERLGISRSQLSAIEN 34
 
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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