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Conserved domains on  [gi|1147416789|ref|XP_020077007|]
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putative DNA-directed RNA polymerase III subunit, partial [Hyphopichia burtonii NRRL Y-1933]

Protein Classification

Rpb4/RPC9 family DNA-directed RNA polymerase subunit( domain architecture ID 10511130)

Rpb4/RPC9 family DNA-directed RNA polymerase subunit similar to Saccharomyces cerevisiae DNA-directed RNA polymerase III subunit RPC9, a peripheral component of RNA polymerase III which synthesizes small RNAs, such as 5S rRNA and tRNAs

CATH:  1.10.287.2350
EC:  2.7.7.6
Gene Ontology:  GO:0006352|GO:0000166|GO:0030880

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RNA_pol_Rpb4 pfam03874
RNA polymerase Rpb4; This family includes the Rpb4 protein. This family also includes C17 (aka ...
 10-140 7.77e-24

RNA polymerase Rpb4; This family includes the Rpb4 protein. This family also includes C17 (aka CGRP-RCP) is an essential subunit of RNA polymerase III. C17 forms a subcomplex with C25 which is likely to be the counterpart of subcomplex Rpb4/7 in Pol II.


:

Pssm-ID: 461080  Cd Length: 115  Bit Score: 88.79  E-value: 7.77e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1147416789  10 FLSNYEVFEHLKglkskydwtftpedeEALKKKYENSKHKRykrFTNCGLDLEVITRDMTEYFSRLSSsmITSKEGFKEL 89
Cdd:pfam03874   1 FLSNSEVLLLLK---------------KELEERRNWDFKEE---KEDVPPNLNTILRKTLDYLNRFSR--LKNEEAFKEL 60

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1147416789  90 MIYLNTFDLMKIEKLQIVNSLPRSMAHLYVLVEECDQRLDEEACEGILQKI 140
Cdd:pfam03874  61 VELLNEFELTKAEKLQIVNLLPEDAVELYALIESLEERFTEEELEEILDEL 111
 
Name Accession Description Interval E-value
RNA_pol_Rpb4 pfam03874
RNA polymerase Rpb4; This family includes the Rpb4 protein. This family also includes C17 (aka ...
 10-140 7.77e-24

RNA polymerase Rpb4; This family includes the Rpb4 protein. This family also includes C17 (aka CGRP-RCP) is an essential subunit of RNA polymerase III. C17 forms a subcomplex with C25 which is likely to be the counterpart of subcomplex Rpb4/7 in Pol II.


Pssm-ID: 461080  Cd Length: 115  Bit Score: 88.79  E-value: 7.77e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1147416789  10 FLSNYEVFEHLKglkskydwtftpedeEALKKKYENSKHKRykrFTNCGLDLEVITRDMTEYFSRLSSsmITSKEGFKEL 89
Cdd:pfam03874   1 FLSNSEVLLLLK---------------KELEERRNWDFKEE---KEDVPPNLNTILRKTLDYLNRFSR--LKNEEAFKEL 60

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1147416789  90 MIYLNTFDLMKIEKLQIVNSLPRSMAHLYVLVEECDQRLDEEACEGILQKI 140
Cdd:pfam03874  61 VELLNEFELTKAEKLQIVNLLPEDAVELYALIESLEERFTEEELEEILDEL 111
 
Name Accession Description Interval E-value
RNA_pol_Rpb4 pfam03874
RNA polymerase Rpb4; This family includes the Rpb4 protein. This family also includes C17 (aka ...
 10-140 7.77e-24

RNA polymerase Rpb4; This family includes the Rpb4 protein. This family also includes C17 (aka CGRP-RCP) is an essential subunit of RNA polymerase III. C17 forms a subcomplex with C25 which is likely to be the counterpart of subcomplex Rpb4/7 in Pol II.


Pssm-ID: 461080  Cd Length: 115  Bit Score: 88.79  E-value: 7.77e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1147416789  10 FLSNYEVFEHLKglkskydwtftpedeEALKKKYENSKHKRykrFTNCGLDLEVITRDMTEYFSRLSSsmITSKEGFKEL 89
Cdd:pfam03874   1 FLSNSEVLLLLK---------------KELEERRNWDFKEE---KEDVPPNLNTILRKTLDYLNRFSR--LKNEEAFKEL 60

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1147416789  90 MIYLNTFDLMKIEKLQIVNSLPRSMAHLYVLVEECDQRLDEEACEGILQKI 140
Cdd:pfam03874  61 VELLNEFELTKAEKLQIVNLLPEDAVELYALIESLEERFTEEELEEILDEL 111
 
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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