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Conserved domains on  [gi|2128337788|ref|WP_227876617|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Sphingomonas]

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];
11-112 4.08e-45

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


:

Pssm-ID: 441339  Cd Length: 108  Bit Score: 141.93  E-value: 4.08e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2128337788  11 EGGCPIRDVLDRIGDQWSLLVLAALEPETLRFNTLLRRIGDVSKQMLSRTLRRLEEDGFVERTVYPEVPPRVEYRLTELG 90
Cdd:COG1733     7 EADCPVRRALDVIGGKWKLLILRALLDGPRRFGELRRSLPGISQKMLTQRLRELEEDGLVERTVYPEVPPRVEYSLTEKG 86

                          90       100
                  ....*....|....*....|..
gi 2128337788  91 RSFLEPMRGLIRWADAHQSEVE 112
Cdd:COG1733    87 RSLLPVLDALAEWGEEHLPEIE 108
 
Name Accession Description Interval E-value
HxlR COG1733
DNA-binding transcriptional regulator, HxlR family [Transcription];
11-112 4.08e-45

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


Pssm-ID: 441339  Cd Length: 108  Bit Score: 141.93  E-value: 4.08e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2128337788  11 EGGCPIRDVLDRIGDQWSLLVLAALEPETLRFNTLLRRIGDVSKQMLSRTLRRLEEDGFVERTVYPEVPPRVEYRLTELG 90
Cdd:COG1733     7 EADCPVRRALDVIGGKWKLLILRALLDGPRRFGELRRSLPGISQKMLTQRLRELEEDGLVERTVYPEVPPRVEYSLTEKG 86

                          90       100
                  ....*....|....*....|..
gi 2128337788  91 RSFLEPMRGLIRWADAHQSEVE 112
Cdd:COG1733    87 RSLLPVLDALAEWGEEHLPEIE 108
HxlR pfam01638
HxlR-like helix-turn-helix; HxlR, a member of this family, is a DNA-binding protein that acts ...
 23-112 1.02e-26

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: 94.68  E-value: 1.02e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2128337788  23 IGDQWSLLVLAALEPETLRFNTLLRRIGDVSKQMLSRTLRRLEEDGFVERTVYPEVPPRVEYRLTELGRSFLEPMRGLIR 102
Cdd:pfam01638   2 IGGKWKGLILRELLDGKKRFSELKRAIPGITQKMLTQRLRELEQDGIINREVYPEVPPKVEYSLTEKGRSLEPILQELCD 81

                          90
                  ....*....|
gi 2128337788 103 WADAHQSEVE 112
Cdd:pfam01638  82 WGEEYLEPED 91
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
26-98 1.29e-06

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 43.35  E-value: 1.29e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2128337788   26 QWSLLVLAAlEPETLRFNTLLRRIGdVSKQMLSRTLRRLEEDGFVERTVYPEVPPRVEYRLTELGRSFLEPMR 98
Cdd:smart00347  12 QFLVLRILY-EEGPLSVSELAKRLG-VSPSTVTRVLDRLEKKGLVRREPSPEDRRSVLVSLTEEGRELIEQLL 82
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 20-91 8.05e-03

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: 33.04  E-value: 8.05e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2128337788  20 LDRIGDQWSLLVLAALEPETLRFNTLLRRIGdVSKQMLSRTLRRLEEDGFVERTvypEVPPRVEYRLTELGR 91
Cdd:cd00090     1 LKALSDPTRLRILRLLLEGPLTVSELAERLG-LSQSTVSRHLKKLEEAGLVESR---REGRRVYYSLTDAER 68
 
Name Accession Description Interval E-value
HxlR COG1733
DNA-binding transcriptional regulator, HxlR family [Transcription];
11-112 4.08e-45

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


Pssm-ID: 441339  Cd Length: 108  Bit Score: 141.93  E-value: 4.08e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2128337788  11 EGGCPIRDVLDRIGDQWSLLVLAALEPETLRFNTLLRRIGDVSKQMLSRTLRRLEEDGFVERTVYPEVPPRVEYRLTELG 90
Cdd:COG1733     7 EADCPVRRALDVIGGKWKLLILRALLDGPRRFGELRRSLPGISQKMLTQRLRELEEDGLVERTVYPEVPPRVEYSLTEKG 86

                          90       100
                  ....*....|....*....|..
gi 2128337788  91 RSFLEPMRGLIRWADAHQSEVE 112
Cdd:COG1733    87 RSLLPVLDALAEWGEEHLPEIE 108
HxlR pfam01638
HxlR-like helix-turn-helix; HxlR, a member of this family, is a DNA-binding protein that acts ...
 23-112 1.02e-26

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: 94.68  E-value: 1.02e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2128337788  23 IGDQWSLLVLAALEPETLRFNTLLRRIGDVSKQMLSRTLRRLEEDGFVERTVYPEVPPRVEYRLTELGRSFLEPMRGLIR 102
Cdd:pfam01638   2 IGGKWKGLILRELLDGKKRFSELKRAIPGITQKMLTQRLRELEQDGIINREVYPEVPPKVEYSLTEKGRSLEPILQELCD 81

                          90
                  ....*....|
gi 2128337788 103 WADAHQSEVE 112
Cdd:pfam01638  82 WGEEYLEPED 91
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
26-98 1.29e-06

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 43.35  E-value: 1.29e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2128337788   26 QWSLLVLAAlEPETLRFNTLLRRIGdVSKQMLSRTLRRLEEDGFVERTVYPEVPPRVEYRLTELGRSFLEPMR 98
Cdd:smart00347  12 QFLVLRILY-EEGPLSVSELAKRLG-VSPSTVTRVLDRLEKKGLVRREPSPEDRRSVLVSLTEEGRELIEQLL 82
COG4742 COG4742
Predicted transcriptional regulator, contains HTH domain [Transcription];
31-102 3.16e-06

Predicted transcriptional regulator, contains HTH domain [Transcription];


Pssm-ID: 443776 [Multi-domain]  Cd Length: 267  Bit Score: 44.11  E-value: 3.16e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2128337788  31 VLAALEPETLRFNTLLRRIgDVSKQMLSRTLRRLEEDGFVERTVYpevpprvEYRLTELGRSFLEPMRGLIR 102
Cdd:COG4742    21 ILLLLAEGPKTRSELAESL-DVSRSTILRQLKELEERGLIERDDG-------EYELTTLGRLVVEEMEPLLD 84
MarR COG1846
DNA-binding transcriptional regulator, MarR family [Transcription];
26-102 8.32e-06

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


Pssm-ID: 441451 [Multi-domain]  Cd Length: 142  Bit Score: 42.26  E-value: 8.32e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2128337788  26 QWSLLVLAALEPEtLRFNTLLRRIGdVSKQMLSRTLRRLEEDGFVERTVYPEVPPRVEYRLTELGRSFLEPMRGLIR 102
Cdd:COG1846    40 QFRVLAALAEAGG-LTQSELAERLG-LTKSTVSRLLDRLEEKGLVEREPDPEDRRAVLVRLTEKGRALLEEARPALE 114
PadR COG1695
DNA-binding transcriptional regulator, PadR family [Transcription];
29-95 2.83e-05

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


Pssm-ID: 441301  Cd Length: 102  Bit Score: 39.92  E-value: 2.83e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2128337788  29 LLVLAALEPETL-------RFNTLLRRIGDVSKQMLSRTLRRLEEDGFVERTVYPEV--PPRVEYRLTELGRSFLE 95
Cdd:COG1695    12 LLILALLAEGPMygyeiikELEERSGGFWKVSEGTLYPALKRLEKEGLVESEWEESEggPRRKYYRLTEAGREELA 87
PadR pfam03551
Transcriptional regulator PadR-like family; Members of this family are transcriptional ...
 60-95 5.54e-05

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: 38.77  E-value: 5.54e-05
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 2128337788  60 TLRRLEEDGFVERTVYPEV--PPRVEYRLTELGRSFLE 95
Cdd:pfam03551  37 ILKRLEKEGLVESEWVDSGggPPRKYYRLTDAGRRELA 74
COG3432 COG3432
Predicted transcriptional regulator [Transcription];
55-95 1.64e-03

Predicted transcriptional regulator [Transcription];


Pssm-ID: 442658 [Multi-domain]  Cd Length: 83  Bit Score: 34.84  E-value: 1.64e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 2128337788  55 QMLSRTLRRLEEDGFVERTvypEVPPRVEYRLTELGRSFLE 95
Cdd:COG3432    36 DRLKKYLDLLEEKGLIEKE---DDGGRRIYRITEKGREFLE 73
MarR pfam01047
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 26-73 6.43e-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: 6.43e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 2128337788  26 QWSLLVLAAlEPETLRFNTLLRRIGdVSKQMLSRTLRRLEEDGFVERT 73
Cdd:pfam01047   5 QFHILRILY-EHGPLTVSELAEKLG-VSKSTVTRVLDRLEKKGLIERS 50
MarR_2 pfam12802
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 26-73 6.58e-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: 432797 [Multi-domain]  Cd Length: 60  Bit Score: 32.95  E-value: 6.58e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2128337788  26 QWSLL-VLAALEPETLRfntLLRRIGDVSKQMLSRTLRRLEEDGFVERT 73
Cdd:pfam12802   7 QFRVLlALARNPGLTVA---ELARRLGISKQTVSRLVKRLEAKGLVERE 52
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 20-91 8.05e-03

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: 33.04  E-value: 8.05e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2128337788  20 LDRIGDQWSLLVLAALEPETLRFNTLLRRIGdVSKQMLSRTLRRLEEDGFVERTvypEVPPRVEYRLTELGR 91
Cdd:cd00090     1 LKALSDPTRLRILRLLLEGPLTVSELAERLG-LSQSTVSRHLKKLEEAGLVESR---REGRRVYYSLTDAER 68
 
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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