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Conserved domains on  [gi|489818839|ref|WP_003722652|]
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MULTISPECIES: DNA-dependent RNA polymerase subunit epsilon [Listeria]

Protein Classification

DNA-dependent RNA polymerase subunit epsilon( domain architecture ID 10009363)

DNA-dependent RNA polymerase subunit epsilon, also known as DUF1447 domain-containing protein, is a non-essential component of RNA polymerase (RNAP) that catalyzes RNA synthesis

EC:  2.7.7.6
Gene Ontology:  GO:0003899|GO:0006351
PubMed:  25092033

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RpoEps COG5503
DNA-dependent RNA polymerase auxiliary subunit epsilon [Transcription, Defense mechanisms]; ...
 1-68 8.66e-32

DNA-dependent RNA polymerase auxiliary subunit epsilon [Transcription, Defense mechanisms]; DNA-dependent RNA polymerase auxiliary subunit epsilon is part of the Pathway/BioSystem: RNA polymerase


:

Pssm-ID: 444254  Cd Length: 69  Bit Score: 104.54  E-value: 8.66e-32
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489818839  1 MIFKVFYQETLTETPVREKTQSLYVEAESEVKVRQLLKDEPFHIEFVEKISDAHLAYEKENPDFALWE 68
Cdd:COG5503   1 MIFKVFYQENKDEVPVRENTKSLYVEAESEREVRKKLEDNTYNIEFIQPLSGAHLEYEKQSEDFKLEE 68
 
Name Accession Description Interval E-value
RpoEps COG5503
DNA-dependent RNA polymerase auxiliary subunit epsilon [Transcription, Defense mechanisms]; ...
 1-68 8.66e-32

DNA-dependent RNA polymerase auxiliary subunit epsilon [Transcription, Defense mechanisms]; DNA-dependent RNA polymerase auxiliary subunit epsilon is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 444254  Cd Length: 69  Bit Score: 104.54  E-value: 8.66e-32
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489818839  1 MIFKVFYQETLTETPVREKTQSLYVEAESEVKVRQLLKDEPFHIEFVEKISDAHLAYEKENPDFALWE 68
Cdd:COG5503   1 MIFKVFYQENKDEVPVRENTKSLYVEAESEREVRKKLEDNTYNIEFIQPLSGAHLEYEKQSEDFKLEE 68
PRK13667 PRK13667
hypothetical protein; Provisional
 1-68 8.49e-30

hypothetical protein; Provisional


Pssm-ID: 184224  Cd Length: 70  Bit Score: 99.66  E-value: 8.49e-30
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489818839  1 MIFKVFYQETLTETPVREKTQSLYVEAESEVKVRQLLKD-EPFHIEFVEKISDAHLAYEKENPDFALWE 68
Cdd:PRK13667  1 MIYKVFYQETKDEVPVRETTQTLYLEADSEVEVRGRLKDrTAYNIEFIQLLSGAHLEYEKENGDFKLTE 69
RpoY pfam07288
RNA polymerase epsilon subunit; RNA polymerase in bacteria is a multisubunit protein complex ...
 2-68 6.94e-29

RNA polymerase epsilon subunit; RNA polymerase in bacteria is a multisubunit protein complex that is essential for gene expression. This entry represents the epsilon subunit encoded by the rpoY gene. The structure of epsilon shows simple beta sheet with an alpha helix running diagonally along the back of the structure forming a beta-beta-alpha-beta fold.


Pssm-ID: 462135  Cd Length: 68  Bit Score: 97.25  E-value: 6.94e-29
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489818839   2 IFKVFYQETLTETPVREKTQSLYVEAESEVKVRQLLKDE-PFHIEFVEKISDAHLAYEKENPDFALWE 68
Cdd:pfam07288  1 IYKVYYQETKKEVPVRENTKSLYVEADSEVEARKLLEDNtEYNIEFIQPLSGAHLEYEKQSEDFKLTE 68
 
Name Accession Description Interval E-value
RpoEps COG5503
DNA-dependent RNA polymerase auxiliary subunit epsilon [Transcription, Defense mechanisms]; ...
 1-68 8.66e-32

DNA-dependent RNA polymerase auxiliary subunit epsilon [Transcription, Defense mechanisms]; DNA-dependent RNA polymerase auxiliary subunit epsilon is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 444254  Cd Length: 69  Bit Score: 104.54  E-value: 8.66e-32
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489818839  1 MIFKVFYQETLTETPVREKTQSLYVEAESEVKVRQLLKDEPFHIEFVEKISDAHLAYEKENPDFALWE 68
Cdd:COG5503   1 MIFKVFYQENKDEVPVRENTKSLYVEAESEREVRKKLEDNTYNIEFIQPLSGAHLEYEKQSEDFKLEE 68
PRK13667 PRK13667
hypothetical protein; Provisional
 1-68 8.49e-30

hypothetical protein; Provisional


Pssm-ID: 184224  Cd Length: 70  Bit Score: 99.66  E-value: 8.49e-30
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489818839  1 MIFKVFYQETLTETPVREKTQSLYVEAESEVKVRQLLKD-EPFHIEFVEKISDAHLAYEKENPDFALWE 68
Cdd:PRK13667  1 MIYKVFYQETKDEVPVRETTQTLYLEADSEVEVRGRLKDrTAYNIEFIQLLSGAHLEYEKENGDFKLTE 69
RpoY pfam07288
RNA polymerase epsilon subunit; RNA polymerase in bacteria is a multisubunit protein complex ...
 2-68 6.94e-29

RNA polymerase epsilon subunit; RNA polymerase in bacteria is a multisubunit protein complex that is essential for gene expression. This entry represents the epsilon subunit encoded by the rpoY gene. The structure of epsilon shows simple beta sheet with an alpha helix running diagonally along the back of the structure forming a beta-beta-alpha-beta fold.


Pssm-ID: 462135  Cd Length: 68  Bit Score: 97.25  E-value: 6.94e-29
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489818839   2 IFKVFYQETLTETPVREKTQSLYVEAESEVKVRQLLKDE-PFHIEFVEKISDAHLAYEKENPDFALWE 68
Cdd:pfam07288  1 IYKVYYQETKKEVPVRENTKSLYVEADSEVEARKLLEDNtEYNIEFIQPLSGAHLEYEKQSEDFKLTE 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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