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Conserved domains on  [gi|229577074|ref|NP_001153297|]
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DNA-directed RNA polymerases I, II, and III subunit RPABC5 [Danio rerio]

Protein Classification

RpoN/RPB10 RNA polymerase subunit family protein( domain architecture ID 10010589)

RpoN/RPB10 RNA polymerase subunit family protein similar to Schizosaccharomyces pombe DNA-directed RNA polymerases I, II, and III subunit RPABC5, a common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non-coding RNAs, and a small RNAs, such as 5S rRNA and tRNAs, respectively

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN00032 PLN00032
DNA-directed RNA polymerase; Provisional
 1-67 3.43e-39

DNA-directed RNA polymerase; Provisional


:

Pssm-ID: 215034  Cd Length: 71  Bit Score: 123.33  E-value: 3.43e-39
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 229577074  1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNYAPLEK 67
Cdd:PLN00032  1 MIIPVRCFTCGKVIGNKWDTYLDLLQADYSEGDALDALGLVRYCCRRMLMTHVDLIEKLLNYNTLEK 67
 
Name Accession Description Interval E-value
PLN00032 PLN00032
DNA-directed RNA polymerase; Provisional
 1-67 3.43e-39

DNA-directed RNA polymerase; Provisional


Pssm-ID: 215034  Cd Length: 71  Bit Score: 123.33  E-value: 3.43e-39
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 229577074  1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNYAPLEK 67
Cdd:PLN00032  1 MIIPVRCFTCGKVIGNKWDTYLDLLQADYSEGDALDALGLVRYCCRRMLMTHVDLIEKLLNYNTLEK 67
RNA_pol_N pfam01194
RNA polymerases N / 8 kDa subunit;
2-59 1.08e-37

RNA polymerases N / 8 kDa subunit;


Pssm-ID: 426114  Cd Length: 58  Bit Score: 119.14  E-value: 1.08e-37
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 229577074   2 IIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKL 59
Cdd:pfam01194  1 IIPVRCFTCGKVIGDKWEEYLERLKAGEDPGDALDDLGLKRYCCRRMLLSHVDLIDKL 58
RPB10 COG1644
DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription];
1-62 1.20e-29

DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription];


Pssm-ID: 441250  Cd Length: 62  Bit Score: 99.13  E-value: 1.20e-29
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 229577074  1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNY 62
Cdd:COG1644   1 MIIPVRCFTCGKVIGHKWEEFKRRVEAGEDPGKVLDDLGVKRYCCRRMLLSHVELIDEVIPY 62
 
Name Accession Description Interval E-value
PLN00032 PLN00032
DNA-directed RNA polymerase; Provisional
 1-67 3.43e-39

DNA-directed RNA polymerase; Provisional


Pssm-ID: 215034  Cd Length: 71  Bit Score: 123.33  E-value: 3.43e-39
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 229577074  1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNYAPLEK 67
Cdd:PLN00032  1 MIIPVRCFTCGKVIGNKWDTYLDLLQADYSEGDALDALGLVRYCCRRMLMTHVDLIEKLLNYNTLEK 67
RNA_pol_N pfam01194
RNA polymerases N / 8 kDa subunit;
2-59 1.08e-37

RNA polymerases N / 8 kDa subunit;


Pssm-ID: 426114  Cd Length: 58  Bit Score: 119.14  E-value: 1.08e-37
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 229577074   2 IIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKL 59
Cdd:pfam01194  1 IIPVRCFTCGKVIGDKWEEYLERLKAGEDPGDALDDLGLKRYCCRRMLLSHVDLIDKL 58
RPB10 COG1644
DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription];
1-62 1.20e-29

DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription];


Pssm-ID: 441250  Cd Length: 62  Bit Score: 99.13  E-value: 1.20e-29
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 229577074  1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNY 62
Cdd:COG1644   1 MIIPVRCFTCGKVIGHKWEEFKRRVEAGEDPGKVLDDLGVKRYCCRRMLLSHVELIDEVIPY 62
PRK04016 PRK04016
DNA-directed RNA polymerase subunit N; Provisional
 1-62 5.16e-29

DNA-directed RNA polymerase subunit N; Provisional


Pssm-ID: 235200  Cd Length: 62  Bit Score: 97.26  E-value: 5.16e-29
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 229577074  1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNY 62
Cdd:PRK04016  1 MMIPVRCFTCGKVIAEKWEEFKERVEAGEDPGKVLDDLGVKRYCCRRMLLSHVELIDEVIPY 62
 
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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