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Conserved domains on  [gi|657626814|ref|WP_029437586|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Bacillus]

Protein Classification

winged helix-turn-helix transcriptional regulator( domain architecture ID 10004391)

winged helix-turn-helix (HTH) transcriptional regulator containing a HxlR family HTH domain; similar to HTH-type transcriptional regulator HxlR, a DNA-binding protein that acts as a positive regulator of the formaldehyde-inducible hxlAB operon

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  15808743|10679470|10908318

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HxlR COG1733
DNA-binding transcriptional regulator, HxlR family [Transcription];
17-109 4.00e-45

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


:

Pssm-ID: 441339  Cd Length: 108  Bit Score: 141.54  E-value: 4.00e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 657626814  17 PCPIAKTLDVIRTKWTFLIIRDLLiEGTLRFSDLQKSMDGISPKTLSLRLKELEAQGIITRKVYPEVPPRVEYTLTDKGK 96
Cdd:COG1733    9 DCPVRRALDVIGGKWKLLILRALL-DGPRRFGELRRSLPGISQKMLTQRLRELEEDGLVERTVYPEVPPRVEYSLTEKGR 87

                         90
                 ....*....|...
gi 657626814  97 QLEGIFIELKRFG 109
Cdd:COG1733   88 SLLPVLDALAEWG 100
 
Name Accession Description Interval E-value
HxlR COG1733
DNA-binding transcriptional regulator, HxlR family [Transcription];
17-109 4.00e-45

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


Pssm-ID: 441339  Cd Length: 108  Bit Score: 141.54  E-value: 4.00e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 657626814  17 PCPIAKTLDVIRTKWTFLIIRDLLiEGTLRFSDLQKSMDGISPKTLSLRLKELEAQGIITRKVYPEVPPRVEYTLTDKGK 96
Cdd:COG1733    9 DCPVRRALDVIGGKWKLLILRALL-DGPRRFGELRRSLPGISQKMLTQRLRELEEDGLVERTVYPEVPPRVEYSLTEKGR 87

                         90
                 ....*....|...
gi 657626814  97 QLEGIFIELKRFG 109
Cdd:COG1733   88 SLLPVLDALAEWG 100
HxlR pfam01638
HxlR-like helix-turn-helix; HxlR, a member of this family, is a DNA-binding protein that acts ...
 26-109 1.42e-30

HxlR-like helix-turn-helix; HxlR, a member of this family, is a DNA-binding protein that acts as a positive regulator of the formaldehyde-inducible hxlAB operon in Bacillus subtilis.


Pssm-ID: 460276 [Multi-domain]  Cd Length: 91  Bit Score: 104.31  E-value: 1.42e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 657626814   26 VIRTKWTFLIIRDLLiEGTLRFSDLQKSMDGISPKTLSLRLKELEAQGIITRKVYPEVPPRVEYTLTDKGKQLEGIFIEL 105
Cdd:pfam01638   1 LIGGKWKGLILRELL-DGKKRFSELKRAIPGITQKMLTQRLRELEQDGIINREVYPEVPPKVEYSLTEKGRSLEPILQEL 79


                  ....
gi 657626814  106 KRFG 109
Cdd:pfam01638  80 CDWG 83
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
20-98 9.51e-06

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 41.04  E-value: 9.51e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 657626814    20 IAKTLDVIRTKWtfLIIRDLLIEGTLRFSDLQKSMdGISPKTLSLRLKELEAQGIITRKVYPEVPPRVEYTLTDKGKQL 98
Cdd:smart00347   2 ELKPLGLTPTQF--LVLRILYEEGPLSVSELAKRL-GVSPSTVTRVLDRLEKKGLVRREPSPEDRRSVLVSLTEEGREL 77
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 38-94 1.12e-04

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: 37.66  E-value: 1.12e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 657626814  38 DLLIEGTLRFSDLQKSMdGISPKTLSLRLKELEAQGIITRKvypEVPPRVEYTLTDK 94
Cdd:cd00090   14 RLLLEGPLTVSELAERL-GLSQSTVSRHLKKLEEAGLVESR---REGRRVYYSLTDA 66
PRK14165 PRK14165
winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
 48-107 1.18e-03

winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional


Pssm-ID: 184548 [Multi-domain]  Cd Length: 217  Bit Score: 36.58  E-value: 1.18e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 657626814  48 SDLQKSMdGISPKTLSLRLKELEAQGIITRKVypeVPPRVEYTLTDKG-KQLEGIFIELKR 107
Cdd:PRK14165  25 SEFANHT-GTSSKTAARILKQLEDEGYITRTI---VPRGQLITITEKGlDVLYNEYADYSR 81
 
Name Accession Description Interval E-value
HxlR COG1733
DNA-binding transcriptional regulator, HxlR family [Transcription];
17-109 4.00e-45

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


Pssm-ID: 441339  Cd Length: 108  Bit Score: 141.54  E-value: 4.00e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 657626814  17 PCPIAKTLDVIRTKWTFLIIRDLLiEGTLRFSDLQKSMDGISPKTLSLRLKELEAQGIITRKVYPEVPPRVEYTLTDKGK 96
Cdd:COG1733    9 DCPVRRALDVIGGKWKLLILRALL-DGPRRFGELRRSLPGISQKMLTQRLRELEEDGLVERTVYPEVPPRVEYSLTEKGR 87

                         90
                 ....*....|...
gi 657626814  97 QLEGIFIELKRFG 109
Cdd:COG1733   88 SLLPVLDALAEWG 100
HxlR pfam01638
HxlR-like helix-turn-helix; HxlR, a member of this family, is a DNA-binding protein that acts ...
 26-109 1.42e-30

HxlR-like helix-turn-helix; HxlR, a member of this family, is a DNA-binding protein that acts as a positive regulator of the formaldehyde-inducible hxlAB operon in Bacillus subtilis.


Pssm-ID: 460276 [Multi-domain]  Cd Length: 91  Bit Score: 104.31  E-value: 1.42e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 657626814   26 VIRTKWTFLIIRDLLiEGTLRFSDLQKSMDGISPKTLSLRLKELEAQGIITRKVYPEVPPRVEYTLTDKGKQLEGIFIEL 105
Cdd:pfam01638   1 LIGGKWKGLILRELL-DGKKRFSELKRAIPGITQKMLTQRLRELEQDGIINREVYPEVPPKVEYSLTEKGRSLEPILQEL 79


                  ....
gi 657626814  106 KRFG 109
Cdd:pfam01638  80 CDWG 83
Rfk COG1339
Archaeal CTP-dependent riboflavin kinase [Coenzyme transport and metabolism]; Archaeal ...
 48-107 6.27e-07

Archaeal CTP-dependent riboflavin kinase [Coenzyme transport and metabolism]; Archaeal CTP-dependent riboflavin kinase is part of the Pathway/BioSystem: Riboflavin/FAD biosynthesis


Pssm-ID: 440950 [Multi-domain]  Cd Length: 219  Bit Score: 45.61  E-value: 6.27e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 657626814  48 SDLQKSMdGISPKTLSLRLKELEAQGIITRKVypeVPPRVEYTLTDKGKQ-LEGIFIELKR 107
Cdd:COG1339   26 SELAKRL-GISQQTASRRLQELEDAGLIERDL---VGDGQWVKITEKGEElLRREYADYRR 82
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
20-98 9.51e-06

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 41.04  E-value: 9.51e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 657626814    20 IAKTLDVIRTKWtfLIIRDLLIEGTLRFSDLQKSMdGISPKTLSLRLKELEAQGIITRKVYPEVPPRVEYTLTDKGKQL 98
Cdd:smart00347   2 ELKPLGLTPTQF--LVLRILYEEGPLSVSELAKRL-GVSPSTVTRVLDRLEKKGLVRREPSPEDRRSVLVSLTEEGREL 77
MarR COG1846
DNA-binding transcriptional regulator, MarR family [Transcription];
29-98 4.18e-05

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


Pssm-ID: 441451 [Multi-domain]  Cd Length: 142  Bit Score: 39.95  E-value: 4.18e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 657626814  29 TKWTFLIIRDLLIEGTLRFSDLQKSMdGISPKTLSLRLKELEAQGIITRKVYPEVPPRVEYTLTDKGKQL 98
Cdd:COG1846   37 TPAQFRVLAALAEAGGLTQSELAERL-GLTKSTVSRLLDRLEEKGLVEREPDPEDRRAVLVRLTEKGRAL 105
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 38-94 1.12e-04

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: 37.66  E-value: 1.12e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 657626814  38 DLLIEGTLRFSDLQKSMdGISPKTLSLRLKELEAQGIITRKvypEVPPRVEYTLTDK 94
Cdd:cd00090   14 RLLLEGPLTVSELAERL-GLSQSTVSRHLKKLEEAGLVESR---REGRRVYYSLTDA 66
COG3398 COG3398
Predicted transcriptional regulator, contains two HTH domains [Transcription];
35-94 1.36e-04

Predicted transcriptional regulator, contains two HTH domains [Transcription];


Pssm-ID: 442625 [Multi-domain]  Cd Length: 159  Bit Score: 38.71  E-value: 1.36e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 657626814  35 IIRDLLIEGTLRFSDLQKSMdGISPKTLSLRLKELEAQGIITRKvypEVPPRVEYTLTDK 94
Cdd:COG3398  102 ILLYLLENPGATNKELAEEL-GISRSTVSWHLKRLEEDGLVERE---RDGRNVRYYLNPP 157
PadR pfam03551
Transcriptional regulator PadR-like family; Members of this family are transcriptional ...
 49-97 4.03e-04

Transcriptional regulator PadR-like family; Members of this family are transcriptional regulators that appear to be related to the pfam01047 family. This family includes PadR, a protein that is involved in negative regulation of phenolic acid metabolism.


Pssm-ID: 397561  Cd Length: 74  Bit Score: 36.07  E-value: 4.03e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 657626814   49 DLQKSMDG---ISPKTLSLRLKELEAQGIIT--RKVYPEVPPRVEYTLTDKGKQ 97
Cdd:pfam03551  18 ELEELSGGfwrPSEGTLYPILKRLEKEGLVEseWVDSGGGPPRKYYRLTDAGRR 71
COG4742 COG4742
Predicted transcriptional regulator, contains HTH domain [Transcription];
39-96 4.10e-04

Predicted transcriptional regulator, contains HTH domain [Transcription];


Pssm-ID: 443776 [Multi-domain]  Cd Length: 267  Bit Score: 37.95  E-value: 4.10e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 657626814  39 LLIEGTLRFSDLQKSMDgISPKTLSLRLKELEAQGIITRKVYpevpprvEYTLTDKGK 96
Cdd:COG4742   24 LLAEGPKTRSELAESLD-VSRSTILRQLKELEERGLIERDDG-------EYELTTLGR 73
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
36-93 6.50e-04

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 35.26  E-value: 6.50e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 657626814    36 IRDLLIEGTLRFSDLQKSMdGISPKTLSLRLKELEAQGIITRKvypEVPPRVEYTLTD 93
Cdd:smart00418   2 ILKLLAEGELCVCELAEIL-GLSQSTVSHHLKKLREAGLVESR---REGKRVYYSLTD 55
PRK14165 PRK14165
winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
 48-107 1.18e-03

winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional


Pssm-ID: 184548 [Multi-domain]  Cd Length: 217  Bit Score: 36.58  E-value: 1.18e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 657626814  48 SDLQKSMdGISPKTLSLRLKELEAQGIITRKVypeVPPRVEYTLTDKG-KQLEGIFIELKR 107
Cdd:PRK14165  25 SEFANHT-GTSSKTAARILKQLEDEGYITRTI---VPRGQLITITEKGlDVLYNEYADYSR 81
MarR pfam01047
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 33-78 4.72e-03

MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.


Pssm-ID: 426012 [Multi-domain]  Cd Length: 59  Bit Score: 32.90  E-value: 4.72e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 657626814   33 FLIIRDLLIEGTLRFSDLQKSMdGISPKTLSLRLKELEAQGIITRK 78
Cdd:pfam01047   6 FHILRILYEHGPLTVSELAEKL-GVSKSTVTRVLDRLEKKGLIERS 50
 
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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