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Conserved domains on  [gi|1584882113|ref|WP_131004946|]
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hypothetical protein [Clostridioides difficile]

Protein Classification

RNA polymerase sigma factor( domain architecture ID 1001340)

RNA polymerase sigma factor is an initiation factor that promotes the attachment of RNA polymerase to specific initiation sites and is then released

Gene Ontology:  GO:0016987
PubMed:  33122819|16285916

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RpoE super family cl34313
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 68-141 9.17e-03

DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase


The actual alignment was detected with superfamily member COG1595:

Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 34.97  E-value: 9.17e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1584882113  68 SQEKIYIKETEIEIIDSRIEminiytkRLSEKEQEIISLRHFDSKinSYGEISELLMISKTVVQRKYTDALRKI 141
Cdd:COG1595   107 DPEEALEAEELLEALLAALE-------RLPPRQREVLVLRYLEGL--SYAEIAEILGISEGTVKSRLSRARKKL 171
 
Name Accession Description Interval E-value
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 68-141 9.17e-03

DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 34.97  E-value: 9.17e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1584882113  68 SQEKIYIKETEIEIIDSRIEminiytkRLSEKEQEIISLRHFDSKinSYGEISELLMISKTVVQRKYTDALRKI 141
Cdd:COG1595   107 DPEEALEAEELLEALLAALE-------RLPPRQREVLVLRYLEGL--SYAEIAEILGISEGTVKSRLSRARKKL 171
 
Name Accession Description Interval E-value
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 68-141 9.17e-03

DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 34.97  E-value: 9.17e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1584882113  68 SQEKIYIKETEIEIIDSRIEminiytkRLSEKEQEIISLRHFDSKinSYGEISELLMISKTVVQRKYTDALRKI 141
Cdd:COG1595   107 DPEEALEAEELLEALLAALE-------RLPPRQREVLVLRYLEGL--SYAEIAEILGISEGTVKSRLSRARKKL 171
 
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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