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Conserved domains on  [gi|1238239321|gb|PAM75903.1|]
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hypothetical protein CFD21_21255, partial [Bacillus subtilis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
rho super family cl35817
transcription termination factor Rho; Provisional
 1-42 4.81e-04

transcription termination factor Rho; Provisional


The actual alignment was detected with superfamily member PRK09376:

Pssm-ID: 236490 [Multi-domain]  Cd Length: 416  Bit Score: 36.66  E-value: 4.81e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1238239321   1 MATTELSVKSVKELRNIAKEMNITGRWDMNRSQLIYVIERTQ 42
Cdd:PRK09376    1 MNLSELKNKSLSELLELAEELGIENASRLRKQELIFAILKAQ 42
 
Name Accession Description Interval E-value
rho PRK09376
transcription termination factor Rho; Provisional
 1-42 4.81e-04

transcription termination factor Rho; Provisional


Pssm-ID: 236490 [Multi-domain]  Cd Length: 416  Bit Score: 36.66  E-value: 4.81e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1238239321   1 MATTELSVKSVKELRNIAKEMNITGRWDMNRSQLIYVIERTQ 42
Cdd:PRK09376    1 MNLSELKNKSLSELLELAEELGIENASRLRKQELIFAILKAQ 42
Rho_N smart00959
Rho termination factor, N-terminal domain; The Rho termination factor disengages newly ...
 5-42 7.26e-04

Rho termination factor, N-terminal domain; The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It it thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers. This domain is found to the N-terminus of the RNA binding domain.


Pssm-ID: 198027 [Multi-domain]  Cd Length: 43  Bit Score: 33.89  E-value: 7.26e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1238239321   5 ELSVKSVKELRNIAKEMNITGRWDMNRSQLIYVIERTQ 42
Cdd:smart00959  1 ELKKKTLSELLEIAKELGIENASRLRKQELIFAILKAQ 38
Rho_N pfam07498
Rho termination factor, N-terminal domain; The Rho termination factor disengages newly ...
 5-42 1.14e-03

Rho termination factor, N-terminal domain; The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It it thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers. This domain is found to the N-terminus of the RNA binding domain (pfam07497).


Pssm-ID: 429493 [Multi-domain]  Cd Length: 43  Bit Score: 33.51  E-value: 1.14e-03
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 1238239321  5 ELSVKSVKELRNIAKEMNITGRWDMNRSQLIYVIERTQ 42
Cdd:pfam07498  1 ELKEKTLSELREIAKELGIENYSRLRKQELIFAILKAQ 38
 
Name Accession Description Interval E-value
rho PRK09376
transcription termination factor Rho; Provisional
 1-42 4.81e-04

transcription termination factor Rho; Provisional


Pssm-ID: 236490 [Multi-domain]  Cd Length: 416  Bit Score: 36.66  E-value: 4.81e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1238239321   1 MATTELSVKSVKELRNIAKEMNITGRWDMNRSQLIYVIERTQ 42
Cdd:PRK09376    1 MNLSELKNKSLSELLELAEELGIENASRLRKQELIFAILKAQ 42
Rho_N smart00959
Rho termination factor, N-terminal domain; The Rho termination factor disengages newly ...
 5-42 7.26e-04

Rho termination factor, N-terminal domain; The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It it thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers. This domain is found to the N-terminus of the RNA binding domain.


Pssm-ID: 198027 [Multi-domain]  Cd Length: 43  Bit Score: 33.89  E-value: 7.26e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1238239321   5 ELSVKSVKELRNIAKEMNITGRWDMNRSQLIYVIERTQ 42
Cdd:smart00959  1 ELKKKTLSELLEIAKELGIENASRLRKQELIFAILKAQ 38
Rho_N pfam07498
Rho termination factor, N-terminal domain; The Rho termination factor disengages newly ...
 5-42 1.14e-03

Rho termination factor, N-terminal domain; The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It it thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers. This domain is found to the N-terminus of the RNA binding domain (pfam07497).


Pssm-ID: 429493 [Multi-domain]  Cd Length: 43  Bit Score: 33.51  E-value: 1.14e-03
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 1238239321  5 ELSVKSVKELRNIAKEMNITGRWDMNRSQLIYVIERTQ 42
Cdd:pfam07498  1 ELKEKTLSELREIAKELGIENYSRLRKQELIFAILKAQ 38
 
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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