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Conserved domains on  [gi|1822621265|ref|WP_165852465|]
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MULTISPECIES: HTH domain-containing protein [Bacteroidaceae]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG3398 super family cl28563
Predicted transcriptional regulator, contains two HTH domains [Transcription];
3-44 5.91e-05

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


The actual alignment was detected with superfamily member COG3398:

Pssm-ID: 442625 [Multi-domain]  Cd Length: 159  Bit Score: 37.55  E-value: 5.91e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1822621265   3 ENSNIPRKELPERLQVSESAIQKHIVFLKEQGIITREGGNKY 44
Cdd:COG3398   108 ENPGATNKELAEELGISRSTVSWHLKRLEEDGLVERERDGRN 149
 
Name Accession Description Interval E-value
COG3398 COG3398
Predicted transcriptional regulator, contains two HTH domains [Transcription];
3-44 5.91e-05

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


Pssm-ID: 442625 [Multi-domain]  Cd Length: 159  Bit Score: 37.55  E-value: 5.91e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1822621265   3 ENSNIPRKELPERLQVSESAIQKHIVFLKEQGIITREGGNKY 44
Cdd:COG3398   108 ENPGATNKELAEELGISRSTVSWHLKRLEEDGLVERERDGRN 149
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
11-48 2.84e-04

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 34.11  E-value: 2.84e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1822621265  11 ELPERLQVSESAIQKHIVFLKEQGIITREggnKYGKWK 48
Cdd:smart00418 15 ELAEILGLSQSTVSHHLKKLREAGLVESR---REGKRV 49
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 1-36 4.59e-04

HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.


Pssm-ID: 429896 [Multi-domain]  Cd Length: 52  Bit Score: 33.17  E-value: 4.59e-04
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 1822621265  1 MKENSNIPRKELPERLQVSESAIQKHIVFLKEQGII 36
Cdd:pfam08279  8 LEARGPISGQELAEKLGVSRRTIRRDIKILEELGVP 43
HTH_metalloreg NF033788
metalloregulator ArsR/SmtB family transcription factor; Transcriptional repressors that sense ...
 11-47 6.93e-04

metalloregulator ArsR/SmtB family transcription factor; Transcriptional repressors that sense toxic heavy metals such as arsenic or cadmium, and are released from DNA so that resistance factors will be expressed, include ArsR, SmtB, ZiaR, CadC, CadX, KmtR, etc. However, some members of this family, including the sporulation delaying system autorepressor SdpR and its family (see NF033789), may lack metal-binding cites and instead regulate other cellular processes.


Pssm-ID: 411368 [Multi-domain]  Cd Length: 76  Bit Score: 33.59  E-value: 6.93e-04
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 1822621265 11 ELPERLQVSESAIQKHIVFLKEQGIITREggnKYGKW 47
Cdd:NF033788  29 ELAEALGLSQSAVSQHLKVLRDAGLVTSR---REGRW 62
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 11-49 7.89e-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: 33.43  E-value: 7.89e-04
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 1822621265 11 ELPERLQVSESAIQKHIVFLKEQGIITREggnKYGKWKV 49
Cdd:cd00090   25 ELAERLGLSQSTVSRHLKKLEEAGLVESR---REGRRVY 60
cas_HTH TIGR01884
CRISPR locus-related DNA-binding protein; Most but not all examples of this family are ...
 10-41 9.91e-03

CRISPR locus-related DNA-binding protein; Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity. [Regulatory functions, DNA interactions, , ]


Pssm-ID: 273852 [Multi-domain]  Cd Length: 203  Bit Score: 31.56  E-value: 9.91e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1822621265  10 KELPERLQVSESAIQKHIVFLKEQGIITREGG 41
Cdd:TIGR01884 161 KNIAKKLGKSLSTISRHLAELEKKGLVEQKGR 192
 
Name Accession Description Interval E-value
COG3398 COG3398
Predicted transcriptional regulator, contains two HTH domains [Transcription];
3-44 5.91e-05

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


Pssm-ID: 442625 [Multi-domain]  Cd Length: 159  Bit Score: 37.55  E-value: 5.91e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1822621265   3 ENSNIPRKELPERLQVSESAIQKHIVFLKEQGIITREGGNKY 44
Cdd:COG3398   108 ENPGATNKELAEELGISRSTVSWHLKRLEEDGLVERERDGRN 149
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
11-48 2.84e-04

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 34.11  E-value: 2.84e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1822621265  11 ELPERLQVSESAIQKHIVFLKEQGIITREggnKYGKWK 48
Cdd:smart00418 15 ELAEILGLSQSTVSHHLKKLREAGLVESR---REGKRV 49
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 1-36 4.59e-04

HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.


Pssm-ID: 429896 [Multi-domain]  Cd Length: 52  Bit Score: 33.17  E-value: 4.59e-04
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 1822621265  1 MKENSNIPRKELPERLQVSESAIQKHIVFLKEQGII 36
Cdd:pfam08279  8 LEARGPISGQELAEKLGVSRRTIRRDIKILEELGVP 43
HTH_metalloreg NF033788
metalloregulator ArsR/SmtB family transcription factor; Transcriptional repressors that sense ...
 11-47 6.93e-04

metalloregulator ArsR/SmtB family transcription factor; Transcriptional repressors that sense toxic heavy metals such as arsenic or cadmium, and are released from DNA so that resistance factors will be expressed, include ArsR, SmtB, ZiaR, CadC, CadX, KmtR, etc. However, some members of this family, including the sporulation delaying system autorepressor SdpR and its family (see NF033789), may lack metal-binding cites and instead regulate other cellular processes.


Pssm-ID: 411368 [Multi-domain]  Cd Length: 76  Bit Score: 33.59  E-value: 6.93e-04
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 1822621265 11 ELPERLQVSESAIQKHIVFLKEQGIITREggnKYGKW 47
Cdd:NF033788  29 ELAEALGLSQSAVSQHLKVLRDAGLVTSR---REGRW 62
ArsR COG0640
DNA-binding transcriptional regulator, ArsR family [Transcription];
11-47 7.02e-04

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


Pssm-ID: 440405 [Multi-domain]  Cd Length: 92  Bit Score: 33.71  E-value: 7.02e-04
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 1822621265 11 ELPERLQVSESAIQKHIVFLKEQGIITREggnKYGKW 47
Cdd:COG0640   38 ELAEALGLSQSTVSHHLKVLREAGLVTSR---REGRW 71
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 11-49 7.89e-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: 33.43  E-value: 7.89e-04
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 1822621265 11 ELPERLQVSESAIQKHIVFLKEQGIITREggnKYGKWKV 49
Cdd:cd00090   25 ELAERLGLSQSTVSRHLKKLEEAGLVESR---REGRRVY 60
Lrp COG1522
DNA-binding transcriptional regulator, Lrp family [Transcription];
3-38 1.69e-03

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


Pssm-ID: 441131 [Multi-domain]  Cd Length: 138  Bit Score: 33.21  E-value: 1.69e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1822621265   3 ENSNIPRKELPERLQVSESAIQKHIVFLKEQGIITR 38
Cdd:COG1522    16 EDGRLSFAELAERVGLSESTVLRRVRRLEEAGVIRG 51
COG4742 COG4742
Predicted transcriptional regulator, contains HTH domain [Transcription];
9-42 3.55e-03

Predicted transcriptional regulator, contains HTH domain [Transcription];


Pssm-ID: 443776 [Multi-domain]  Cd Length: 267  Bit Score: 32.94  E-value: 3.55e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1822621265   9 RKELPERLQVSESAIQKHIVFLKEQGIITREGGN 42
Cdd:COG4742    32 RSELAESLDVSRSTILRQLKELEERGLIERDDGE 65
HTH_DeoR pfam08220
DeoR-like helix-turn-helix domain;
10-38 8.72e-03

DeoR-like helix-turn-helix domain;


Pssm-ID: 285436 [Multi-domain]  Cd Length: 57  Bit Score: 30.31  E-value: 8.72e-03
                         10        20
                 ....*....|....*....|....*....
gi 1822621265 10 KELPERLQVSESAIQKHIVFLKEQGIITR 38
Cdd:pfam08220 18 EELAELLGVSEMTIRRDLNELEEQGLLTR 46
cas_HTH TIGR01884
CRISPR locus-related DNA-binding protein; Most but not all examples of this family are ...
 10-41 9.91e-03

CRISPR locus-related DNA-binding protein; Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity. [Regulatory functions, DNA interactions, , ]


Pssm-ID: 273852 [Multi-domain]  Cd Length: 203  Bit Score: 31.56  E-value: 9.91e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1822621265  10 KELPERLQVSESAIQKHIVFLKEQGIITREGG 41
Cdd:TIGR01884 161 KNIAKKLGKSLSTISRHLAELEKKGLVEQKGR 192
YobV COG2378
Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains ...
 7-51 9.98e-03

Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains [Transcription];


Pssm-ID: 441945 [Multi-domain]  Cd Length: 314  Bit Score: 31.59  E-value: 9.98e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1822621265   7 IPRKELPERLQVSESAIQKHIVFLKEQGI-ITREGGnKYGKWKVIE 51
Cdd:COG2378    20 VTAAELAERLEVSERTIYRDIDALRELGVpIEAERG-RGGGYRLRD 64
 
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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