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Conserved domains on  [gi|1757401654|ref|WP_151103232|]
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helix-turn-helix domain-containing protein, partial [Pseudomonas chlororaphis]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 10450557)

helix-turn-helix (HTH) domain-containing protein binds DNA and may be a TetR/AcrR family transcriptional regulator that controls genes involved in a variety of processes including antibiotic production, osmotic stress response, efflux pump expression, and multidrug resistance

Gene Ontology:  GO:0003677
PubMed:  23602932|24006471|15944459|15808743

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TetR_N pfam00440
Bacterial regulatory proteins, tetR family;
10-55 4.33e-12

Bacterial regulatory proteins, tetR family;


:

Pssm-ID: 425684 [Multi-domain]  Cd Length: 47  Bit Score: 53.57  E-value: 4.33e-12
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 1757401654 10 IIAAALELFRSKGFADVSTRDLAEHAGLSRSHVYHYFSDWKELRRE 55
Cdd:pfam00440  1 ILDAARELFAERGYDATTVREIAKRAGVSKGALYRYFGSKEELLEA 46
 
Name Accession Description Interval E-value
TetR_N pfam00440
Bacterial regulatory proteins, tetR family;
10-55 4.33e-12

Bacterial regulatory proteins, tetR family;


Pssm-ID: 425684 [Multi-domain]  Cd Length: 47  Bit Score: 53.57  E-value: 4.33e-12
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 1757401654 10 IIAAALELFRSKGFADVSTRDLAEHAGLSRSHVYHYFSDWKELRRE 55
Cdd:pfam00440  1 ILDAARELFAERGYDATTVREIAKRAGVSKGALYRYFGSKEELLEA 46
AcrR COG1309
DNA-binding protein, AcrR family, includes nucleoid occlusion protein SlmA [Transcription];
3-52 1.90e-11

DNA-binding protein, AcrR family, includes nucleoid occlusion protein SlmA [Transcription];


Pssm-ID: 440920 [Multi-domain]  Cd Length: 156  Bit Score: 54.90  E-value: 1.90e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1757401654   3 RIDRKDQIIAAALELFRSKGFADVSTRDLAEHAGLSRSHVYHYFSDWKEL 52
Cdd:COG1309     4 REATRERILDAALELFAEKGYEGTSVRDIAARAGVSKGTLYRHFGSKEEL 53
PRK14996 PRK14996
TetR family transcriptional regulator; Provisional
 1-55 1.37e-04

TetR family transcriptional regulator; Provisional


Pssm-ID: 184958 [Multi-domain]  Cd Length: 192  Bit Score: 36.99  E-value: 1.37e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1757401654   1 MSRIDRKDQIIAAALELFRSKGFADVSTRDLAEHAGLSRSHVYHYFSDWKELRRE 55
Cdd:PRK14996    4 LNRDERREVILQAAMRVALAEGFAAMTVRRIASEAQVAAGQVHHHFSSAGELKAL 58
ScbR_bind_reg NF041196
ScbR family autoregulator-binding transcription factor;
7-55 4.09e-03

ScbR family autoregulator-binding transcription factor;


Pssm-ID: 469100 [Multi-domain]  Cd Length: 191  Bit Score: 32.57  E-value: 4.09e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1757401654   7 KDQIIAAALELFRSKGFADVSTRDLAEHAGLSRSHVYHYFSDWKELRRE 55
Cdd:NF041196    8 RRAILEAAAEVFDERGYAAATISDILERAGVTKGALYFHFSSKEALARA 56
 
Name Accession Description Interval E-value
TetR_N pfam00440
Bacterial regulatory proteins, tetR family;
10-55 4.33e-12

Bacterial regulatory proteins, tetR family;


Pssm-ID: 425684 [Multi-domain]  Cd Length: 47  Bit Score: 53.57  E-value: 4.33e-12
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 1757401654 10 IIAAALELFRSKGFADVSTRDLAEHAGLSRSHVYHYFSDWKELRRE 55
Cdd:pfam00440  1 ILDAARELFAERGYDATTVREIAKRAGVSKGALYRYFGSKEELLEA 46
AcrR COG1309
DNA-binding protein, AcrR family, includes nucleoid occlusion protein SlmA [Transcription];
3-52 1.90e-11

DNA-binding protein, AcrR family, includes nucleoid occlusion protein SlmA [Transcription];


Pssm-ID: 440920 [Multi-domain]  Cd Length: 156  Bit Score: 54.90  E-value: 1.90e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1757401654   3 RIDRKDQIIAAALELFRSKGFADVSTRDLAEHAGLSRSHVYHYFSDWKEL 52
Cdd:COG1309     4 REATRERILDAALELFAEKGYEGTSVRDIAARAGVSKGTLYRHFGSKEEL 53
YbjK COG3226
DNA-binding transcriptional regulator YbjK [Transcription];
5-55 3.42e-07

DNA-binding transcriptional regulator YbjK [Transcription];


Pssm-ID: 442459 [Multi-domain]  Cd Length: 191  Bit Score: 43.77  E-value: 3.42e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1757401654   5 DRKDQIIAAALELFRSKGFADVSTRDLAEHAGLSRSHVYHYFSDWKELRRE 55
Cdd:COG3226     8 ERRERILEAALRVIARDGVRGVTHRAVAAEAGVPLGSTTYYFRTRDELLAA 58
PRK14996 PRK14996
TetR family transcriptional regulator; Provisional
 1-55 1.37e-04

TetR family transcriptional regulator; Provisional


Pssm-ID: 184958 [Multi-domain]  Cd Length: 192  Bit Score: 36.99  E-value: 1.37e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1757401654   1 MSRIDRKDQIIAAALELFRSKGFADVSTRDLAEHAGLSRSHVYHYFSDWKELRRE 55
Cdd:PRK14996    4 LNRDERREVILQAAMRVALAEGFAAMTVRRIASEAQVAAGQVHHHFSSAGELKAL 58
PRK11552 PRK11552
putative DNA-binding transcriptional regulator; Provisional
 7-46 2.20e-04

putative DNA-binding transcriptional regulator; Provisional


Pssm-ID: 236928 [Multi-domain]  Cd Length: 225  Bit Score: 36.18  E-value: 2.20e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1757401654   7 KDQIIAAALELFRSKGFaDVSTRDLAEHAGLSRSHVYHYF 46
Cdd:PRK11552   15 KQQLIAAALAQFGEYGL-HATTRDIAAQAGQNIAAITYYF 53
PRK15008 PRK15008
HTH-type transcriptional regulator RutR; Provisional
 6-46 2.06e-03

HTH-type transcriptional regulator RutR; Provisional


Pssm-ID: 184970 [Multi-domain]  Cd Length: 212  Bit Score: 33.75  E-value: 2.06e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1757401654   6 RKDQIIAAALELFRSKGFADVSTRDLAEHAGLSRSHVYHYF 46
Cdd:PRK15008   19 KKKAILSAALDTFSQFGFHGTRLEQIAELAGVSKTNLLYYF 59
PRK13756 PRK13756
TetR family transcriptional regulator;
1-43 3.00e-03

TetR family transcriptional regulator;


Pssm-ID: 172294 [Multi-domain]  Cd Length: 205  Bit Score: 33.33  E-value: 3.00e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1757401654   1 MSRIDrKDQIIAAALELFRSKGFADVSTRDLAEHAGLSRSHVY 43
Cdd:PRK13756    1 MARLD-KEKVIDSALELLNEVGIEGLTTRKLAQKLGVEQPTLY 42
ScbR_bind_reg NF041196
ScbR family autoregulator-binding transcription factor;
7-55 4.09e-03

ScbR family autoregulator-binding transcription factor;


Pssm-ID: 469100 [Multi-domain]  Cd Length: 191  Bit Score: 32.57  E-value: 4.09e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1757401654   7 KDQIIAAALELFRSKGFADVSTRDLAEHAGLSRSHVYHYFSDWKELRRE 55
Cdd:NF041196    8 RRAILEAAAEVFDERGYAAATISDILERAGVTKGALYFHFSSKEALARA 56
PRK10668 PRK10668
DNA-binding transcriptional repressor AcrR; Provisional
 7-55 4.54e-03

DNA-binding transcriptional repressor AcrR; Provisional


Pssm-ID: 182632 [Multi-domain]  Cd Length: 215  Bit Score: 32.67  E-value: 4.54e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1757401654   7 KDQIIAAALELFRSKGFADVSTRDLAEHAGLSRSHVYHYFSDWKELRRE 55
Cdd:PRK10668   13 RQHILDAALRLFSQQGVSATSLADIAKAAGVTRGAIYWHFKNKSDLFSE 61
 
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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