NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|736315363|ref|WP_034342469|]
View 

MULTISPECIES: MarR family transcription factor RrpB [Helicobacter]

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

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
HxlR COG1733
DNA-binding transcriptional regulator, HxlR family [Transcription];
6-109 9.40e-47

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


:

Pssm-ID: 441339  Cd Length: 108  Bit Score: 145.40  E-value: 9.40e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736315363   6 SECPIETTLNLIGNKWKIIIIRDLLSGTKRFGELKKSVGatknqSISQKVLTQNLRELEEAKLLKRKVYAEVPPRVEYSL 85
Cdd:COG1733    8 ADCPVRRALDVIGGKWKLLILRALLDGPRRFGELRRSLP-----GISQKMLTQRLRELEEDGLVERTVYPEVPPRVEYSL 82
                         90       100
                 ....*....|....*....|....
gi 736315363  86 TPLGQSLECVLRALESWGEGYKRE 109
Cdd:COG1733   83 TEKGRSLLPVLDALAEWGEEHLPE 106
 
Name Accession Description Interval E-value
HxlR COG1733
DNA-binding transcriptional regulator, HxlR family [Transcription];
6-109 9.40e-47

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


Pssm-ID: 441339  Cd Length: 108  Bit Score: 145.40  E-value: 9.40e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736315363   6 SECPIETTLNLIGNKWKIIIIRDLLSGTKRFGELKKSVGatknqSISQKVLTQNLRELEEAKLLKRKVYAEVPPRVEYSL 85
Cdd:COG1733    8 ADCPVRRALDVIGGKWKLLILRALLDGPRRFGELRRSLP-----GISQKMLTQRLRELEEDGLVERTVYPEVPPRVEYSL 82
                         90       100
                 ....*....|....*....|....
gi 736315363  86 TPLGQSLECVLRALESWGEGYKRE 109
Cdd:COG1733   83 TEKGRSLLPVLDALAEWGEEHLPE 106
HxlR pfam01638
HxlR-like helix-turn-helix; HxlR, a member of this family, is a DNA-binding protein that acts ...
16-110 2.74e-33

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: 110.85  E-value: 2.74e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736315363   16 LIGNKWKIIIIRDLLSGTKRFGELKKSVGatknqSISQKVLTQNLRELEEAKLLKRKVYAEVPPRVEYSLTPLGQSLECV 95
Cdd:pfam01638   1 LIGGKWKGLILRELLDGKKRFSELKRAIP-----GITQKMLTQRLRELEQDGIINREVYPEVPPKVEYSLTEKGRSLEPI 75
                          90
                  ....*....|....*
gi 736315363   96 LRALESWGEGYKREH 110
Cdd:pfam01638  76 LQELCDWGEEYLEPE 90
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
14-87 3.62e-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: 36.12  E-value: 3.62e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 736315363  14 LNLIGNKWKIIIIRDLLSGTKRFGELKKSVGatknqsISQKVLTQNLRELEEAKLLKRKvyaEVPPRVEYSLTP 87
Cdd:cd00090    1 LKALSDPTRLRILRLLLEGPLTVSELAERLG------LSQSTVSRHLKKLEEAGLVESR---REGRRVYYSLTD 65
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
25-87 9.78e-03

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 32.18  E-value: 9.78e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 736315363    25 IIRDLLSGTKRFGELKKSVGatknqsISQKVLTQNLRELEEAKLLKRKvyaEVPPRVEYSLTP 87
Cdd:smart00418   2 ILKLLAEGELCVCELAEILG------LSQSTVSHHLKKLREAGLVESR---REGKRVYYSLTD 55
 
Name Accession Description Interval E-value
HxlR COG1733
DNA-binding transcriptional regulator, HxlR family [Transcription];
6-109 9.40e-47

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


Pssm-ID: 441339  Cd Length: 108  Bit Score: 145.40  E-value: 9.40e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736315363   6 SECPIETTLNLIGNKWKIIIIRDLLSGTKRFGELKKSVGatknqSISQKVLTQNLRELEEAKLLKRKVYAEVPPRVEYSL 85
Cdd:COG1733    8 ADCPVRRALDVIGGKWKLLILRALLDGPRRFGELRRSLP-----GISQKMLTQRLRELEEDGLVERTVYPEVPPRVEYSL 82
                         90       100
                 ....*....|....*....|....
gi 736315363  86 TPLGQSLECVLRALESWGEGYKRE 109
Cdd:COG1733   83 TEKGRSLLPVLDALAEWGEEHLPE 106
HxlR pfam01638
HxlR-like helix-turn-helix; HxlR, a member of this family, is a DNA-binding protein that acts ...
16-110 2.74e-33

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: 110.85  E-value: 2.74e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736315363   16 LIGNKWKIIIIRDLLSGTKRFGELKKSVGatknqSISQKVLTQNLRELEEAKLLKRKVYAEVPPRVEYSLTPLGQSLECV 95
Cdd:pfam01638   1 LIGGKWKGLILRELLDGKKRFSELKRAIP-----GITQKMLTQRLRELEQDGIINREVYPEVPPKVEYSLTEKGRSLEPI 75
                          90
                  ....*....|....*
gi 736315363   96 LRALESWGEGYKREH 110
Cdd:pfam01638  76 LQELCDWGEEYLEPE 90
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
14-87 3.62e-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: 36.12  E-value: 3.62e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 736315363  14 LNLIGNKWKIIIIRDLLSGTKRFGELKKSVGatknqsISQKVLTQNLRELEEAKLLKRKvyaEVPPRVEYSLTP 87
Cdd:cd00090    1 LKALSDPTRLRILRLLLEGPLTVSELAERLG------LSQSTVSRHLKKLEEAGLVESR---REGRRVYYSLTD 65
COG4742 COG4742
Predicted transcriptional regulator, contains HTH domain [Transcription];
25-101 3.70e-04

Predicted transcriptional regulator, contains HTH domain [Transcription];


Pssm-ID: 443776 [Multi-domain]  Cd Length: 267  Bit Score: 37.95  E-value: 3.70e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 736315363  25 IIRDLLSGTKRFGELKKSVGATknqsiSQKVLTQnLRELEEAKLLKRKVYaevpprvEYSLTPLGqslECVLRALES 101
Cdd:COG4742   21 ILLLLAEGPKTRSELAESLDVS-----RSTILRQ-LKELEERGLIERDDG-------EYELTTLG---RLVVEEMEP 81
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
25-87 9.78e-03

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 32.18  E-value: 9.78e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 736315363    25 IIRDLLSGTKRFGELKKSVGatknqsISQKVLTQNLRELEEAKLLKRKvyaEVPPRVEYSLTP 87
Cdd:smart00418   2 ILKLLAEGELCVCELAEILG------LSQSTVSHHLKKLREAGLVESR---REGKRVYYSLTD 55
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH