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Conserved domains on  [gi|445997000|ref|WP_000074855|]
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MULTISPECIES: conjugal transfer protein TraA [Enterobacteriaceae]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 10006622)

helix-turn-helix (HTH) transcriptional regulator binds DNA and functions as a repressor or activator; similar to CsgD family transcriptional regulators which function in controlling the expression of structural components and assembly factors of curli fimbriae

Gene Ontology:  GO:0003700|GO:0003677|GO:0006355
PubMed:  20466769

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
20-82 2.75e-07

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


:

Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 45.90  E-value: 2.75e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 445997000  20 PELSTNQLKVCVFYAMGVPYDAIAQNCRLSPETVRTYLKRSLKNLNLEGYDALRSAVLMRTFV 82
Cdd:COG2771  126 PGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALALRLGLI 188
 
Name Accession Description Interval E-value
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
20-82 2.75e-07

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 45.90  E-value: 2.75e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 445997000  20 PELSTNQLKVCVFYAMGVPYDAIAQNCRLSPETVRTYLKRSLKNLNLEGYDALRSAVLMRTFV 82
Cdd:COG2771  126 PGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALALRLGLI 188
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 19-66 1.18e-03

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 34.04  E-value: 1.18e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 445997000   19 FPELSTNQLKVCVFYAMGVPYDAIAQNCRLSPETVRTYLKRSLKNLNL 66
Cdd:smart00421  1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGV 48
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 21-64 5.51e-03

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 33.86  E-value: 5.51e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 445997000   21 ELSTNQLKVCV-FYAMGVPYDAIAQNCRLSPETVRTYLKRSLKNL 64
Cdd:TIGR02937 110 KLPEREREVLVlRYLEGLSYKEIAEILGISVGTVKRRLKRARKKL 154
 
Name Accession Description Interval E-value
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
20-82 2.75e-07

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 45.90  E-value: 2.75e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 445997000  20 PELSTNQLKVCVFYAMGVPYDAIAQNCRLSPETVRTYLKRSLKNLNLEGYDALRSAVLMRTFV 82
Cdd:COG2771  126 PGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALALRLGLI 188
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 19-66 1.18e-03

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 34.04  E-value: 1.18e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 445997000   19 FPELSTNQLKVCVFYAMGVPYDAIAQNCRLSPETVRTYLKRSLKNLNL 66
Cdd:smart00421  1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGV 48
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 21-64 5.51e-03

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 33.86  E-value: 5.51e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 445997000   21 ELSTNQLKVCV-FYAMGVPYDAIAQNCRLSPETVRTYLKRSLKNL 64
Cdd:TIGR02937 110 KLPEREREVLVlRYLEGLSYKEIAEILGISVGTVKRRLKRARKKL 154
 
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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