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Conserved domains on  [gi|100913026|ref|NP_001035737|]
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DNA-directed RNA polymerase III subunit RPC9 isoform b [Homo sapiens]

Protein Classification

Rpb4 family DNA-directed RNA polymerase subunit( domain architecture ID 1266)

Rpb4 family DNA-directed RNA polymerase subunit similar to Arabidopsis thaliana DNA-directed RNA polymerases IV and V subunit 4 that catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates

CATH:  1.20.1250.40
EC:  2.7.7.6
Gene Ontology:  GO:0000166|GO:0006352|GO:0030880

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RPOL4c super family cl00638
DNA-directed RNA-polymerase II subunit;
14-94 2.84e-22

DNA-directed RNA-polymerase II subunit;


The actual alignment was detected with superfamily member smart00657:

Pssm-ID: 469853  Cd Length: 118  Bit Score: 83.94  E-value: 2.84e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 100913026    14 YETLKYISKTPcRHQSPEIVREFLTALKSHKLTKAEKLQLLNHRPVTAVEIQLMVEESEERLTEEQIEALLHTVTSILPA 93
Cdd:smart00657  39 KKTLKYLSKFA-RFKNREIVRAVRTLLKSKKLHKFEIAQLGNLRPETAEEAQLLIPSLEERIDEEELEELLDDLSSLLPF 117


                   .
gi 100913026    94 E 94
Cdd:smart00657 118 Y 118
 
Name Accession Description Interval E-value
RPOL4c smart00657
DNA-directed RNA-polymerase II subunit;
14-94 2.84e-22

DNA-directed RNA-polymerase II subunit;


Pssm-ID: 128904  Cd Length: 118  Bit Score: 83.94  E-value: 2.84e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 100913026    14 YETLKYISKTPcRHQSPEIVREFLTALKSHKLTKAEKLQLLNHRPVTAVEIQLMVEESEERLTEEQIEALLHTVTSILPA 93
Cdd:smart00657  39 KKTLKYLSKFA-RFKNREIVRAVRTLLKSKKLHKFEIAQLGNLRPETAEEAQLLIPSLEERIDEEELEELLDDLSSLLPF 117


                   .
gi 100913026    94 E 94
Cdd:smart00657 118 Y 118
RNA_pol_Rpb4 pfam03874
RNA polymerase Rpb4; This family includes the Rpb4 protein. This family also includes C17 (aka ...
 14-88 1.51e-14

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: 64.13  E-value: 1.51e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 100913026   14 YETLKYISkTPCRHQSPEIVREFLTALKSHKLTKAEKLQLLNHRPVTAVEIQLMVEESEERLTEEQIEALLHTVT 88
Cdd:pfam03874  39 RKTLDYLN-RFSRLKNEEAFKELVELLNEFELTKAEKLQIVNLLPEDAVELYALIESLEERFTEEELEEILDELS 112
 
Name Accession Description Interval E-value
RPOL4c smart00657
DNA-directed RNA-polymerase II subunit;
14-94 2.84e-22

DNA-directed RNA-polymerase II subunit;


Pssm-ID: 128904  Cd Length: 118  Bit Score: 83.94  E-value: 2.84e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 100913026    14 YETLKYISKTPcRHQSPEIVREFLTALKSHKLTKAEKLQLLNHRPVTAVEIQLMVEESEERLTEEQIEALLHTVTSILPA 93
Cdd:smart00657  39 KKTLKYLSKFA-RFKNREIVRAVRTLLKSKKLHKFEIAQLGNLRPETAEEAQLLIPSLEERIDEEELEELLDDLSSLLPF 117


                   .
gi 100913026    94 E 94
Cdd:smart00657 118 Y 118
RNA_pol_Rpb4 pfam03874
RNA polymerase Rpb4; This family includes the Rpb4 protein. This family also includes C17 (aka ...
 14-88 1.51e-14

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: 64.13  E-value: 1.51e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 100913026   14 YETLKYISkTPCRHQSPEIVREFLTALKSHKLTKAEKLQLLNHRPVTAVEIQLMVEESEERLTEEQIEALLHTVT 88
Cdd:pfam03874  39 RKTLDYLN-RFSRLKNEEAFKELVELLNEFELTKAEKLQIVNLLPEDAVELYALIESLEERFTEEELEEILDELS 112
 
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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