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Protein

DNA-directed RNA polymerase III subunit RPC4

Gene

POLR3D

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Specific peripheric component of RNA polymerase III which synthesizes small RNAs, such as 5S rRNA and tRNAs. Plays a key role in sensing and limiting infection by intracellular bacteria and DNA viruses. Acts as nuclear and cytosolic DNA sensor involved in innate immune response. Can sense non-self dsDNA that serves as template for transcription into dsRNA. The non-self RNA polymerase III transcripts, such as Epstein-Barr virus-encoded RNAs (EBERs) induce type I interferon and NF- Kappa-B through the RIG-I pathway (By similarity).By similarity2 Publications

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Antiviral defense, Immunity, Innate immunity, Transcription

Enzyme and pathway databases

BioCyciZFISH:HS09773-MONOMER.
ReactomeiR-HSA-1834949. Cytosolic sensors of pathogen-associated DNA.
R-HSA-73780. RNA Polymerase III Chain Elongation.
R-HSA-73980. RNA Polymerase III Transcription Termination.
R-HSA-749476. RNA Polymerase III Abortive And Retractive Initiation.
R-HSA-76061. RNA Polymerase III Transcription Initiation From Type 1 Promoter.
R-HSA-76066. RNA Polymerase III Transcription Initiation From Type 2 Promoter.
R-HSA-76071. RNA Polymerase III Transcription Initiation From Type 3 Promoter.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-directed RNA polymerase III subunit RPC4
Short name:
RNA polymerase III subunit C4
Alternative name(s):
DNA-directed RNA polymerase III subunit D
Protein BN51
RNA polymerase III 47 kDa subunit
RPC53 homolog
Gene namesi
Name:POLR3D
Synonyms:BN51, BN51T
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 8

Organism-specific databases

HGNCiHGNC:1080. POLR3D.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: Reactome
  • DNA-directed RNA polymerase III complex Source: MGI
  • nuclear chromatin Source: Ensembl
  • nucleoplasm Source: Reactome
Complete GO annotation...

Keywords - Cellular componenti

DNA-directed RNA polymerase, Nucleus

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000168495.
PharmGKBiPA25390.

Polymorphism and mutation databases

BioMutaiPOLR3D.
DMDMi29429159.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00000739672 – 398DNA-directed RNA polymerase III subunit RPC4Add BLAST397

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserineCombined sources1
Modified residuei42PhosphoserineCombined sources1
Cross-linki78Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei95Omega-N-methylarginineCombined sources1
Modified residuei97Omega-N-methylarginineCombined sources1
Modified residuei99Omega-N-methylarginineCombined sources1
Cross-linki141Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki206Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki220Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki285Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki302Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki396Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources

Keywords - PTMi

Acetylation, Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiP05423.
MaxQBiP05423.
PaxDbiP05423.
PeptideAtlasiP05423.
PRIDEiP05423.

PTM databases

iPTMnetiP05423.
PhosphoSitePlusiP05423.

Expressioni

Gene expression databases

BgeeiENSG00000168495.
CleanExiHS_POLR3D.
ExpressionAtlasiP05423. baseline and differential.
GenevisibleiP05423. HS.

Organism-specific databases

HPAiHPA067875.
HPA068461.

Interactioni

Subunit structurei

Component of the RNA polymerase III (Pol III) complex consisting of 17 subunits (By similarity). Interacts with POLR3E/RPC5.By similarity1 Publication

Protein-protein interaction databases

BioGridi107129. 39 interactors.
DIPiDIP-56155N.
IntActiP05423. 9 interactors.
MINTiMINT-3004820.
STRINGi9606.ENSP00000303088.

Structurei

3D structure databases

ProteinModelPortaliP05423.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG3122. Eukaryota.
ENOG410XPDH. LUCA.
GeneTreeiENSGT00390000013948.
HOGENOMiHOG000008080.
HOVERGENiHBG039777.
InParanoidiP05423.
KOiK03026.
OMAiWDKTVDM.
OrthoDBiEOG091G13BB.
PhylomeDBiP05423.

Family and domain databases

InterProiIPR007811. RPC4.
[Graphical view]
PANTHERiPTHR13408. PTHR13408. 1 hit.
PfamiPF05132. RNA_pol_Rpc4. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P05423-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSEGNAAGEP STPGGPRPLL TGARGLIGRR PAPPLTPGRL PSIRSRDLTL
60 70 80 90 100
GGVKKKTFTP NIISRKIKEE PKEEVTVKKE KRERDRDRQR EGHGRGRGRP
110 120 130 140 150
EVIQSHSIFE QGPAEMMKKK GNWDKTVDVS DMGPSHIINI KKEKRETDEE
160 170 180 190 200
TKQILRMLEK DDFLDDPGLR NDTRNMPVQL PLAHSGWLFK EENDEPDVKP
210 220 230 240 250
WLAGPKEEDM EVDIPAVKVK EEPRDEEEEA KMKAPPKAAR KTPGLPKDVS
260 270 280 290 300
VAELLRELSL TKEEELLFLQ LPDTLPGQPP TQDIKPIKTE VQGEDGQVVL
310 320 330 340 350
IKQEKDREAK LAENACTLAD LTEGQVGKLL IRKSGRVQLL LGKVTLDVTM
360 370 380 390
GTACSFLQEL VSVGLGDSRT GEMTVLGHVK HKLVCSPDFE SLLDHKHR
Length:398
Mass (Da):44,396
Last modified:March 28, 2003 - v2
Checksum:iCD8AFF3257B78410
GO

Sequence cautioni

The sequence BC000516 differs from that shown. Reason: Frameshift at position 175.Curated
The sequence BC003039 differs from that shown. Reason: Frameshift at position 175.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti9 – 18EPSTPGGPRP → RPARQGPDL in AAA51838 (PubMed:3683386).Curated10
Sequence conflicti9 – 12EPST → RPAR in AAA72377 (Ref. 6) Curated4
Sequence conflicti26 – 40LIGRR…TPGRL → SSGGGGLPSPPAV (PubMed:3683386).CuratedAdd BLAST15
Sequence conflicti98G → R in AAA51838 (PubMed:3683386).Curated1
Sequence conflicti233K → R in AAM18216 (PubMed:12391170).Curated1
Sequence conflicti286P → L in AAM18216 (PubMed:12391170).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M17754 mRNA. Translation: AAA51838.1.
AY092086 mRNA. Translation: AAM18216.1.
CR536509 mRNA. Translation: CAG38747.1.
CR541803 mRNA. Translation: CAG46602.1.
BC000516 mRNA. No translation available.
BC003039 mRNA. No translation available.
BC002603 mRNA. Translation: AAH02603.1.
BC004484 mRNA. Translation: AAH04484.1.
AF346574 mRNA. Translation: AAK15371.1.
L15301 Genomic DNA. Translation: AAA72377.1.
CCDSiCCDS34858.1.
PIRiA43700.
RefSeqiNP_001713.2. NM_001722.2.
UniGeneiHs.148342.
Hs.262907.

Genome annotation databases

EnsembliENST00000306433; ENSP00000303088; ENSG00000168495.
ENST00000397802; ENSP00000380904; ENSG00000168495.
GeneIDi661.
KEGGihsa:661.
UCSCiuc003xbl.4. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M17754 mRNA. Translation: AAA51838.1.
AY092086 mRNA. Translation: AAM18216.1.
CR536509 mRNA. Translation: CAG38747.1.
CR541803 mRNA. Translation: CAG46602.1.
BC000516 mRNA. No translation available.
BC003039 mRNA. No translation available.
BC002603 mRNA. Translation: AAH02603.1.
BC004484 mRNA. Translation: AAH04484.1.
AF346574 mRNA. Translation: AAK15371.1.
L15301 Genomic DNA. Translation: AAA72377.1.
CCDSiCCDS34858.1.
PIRiA43700.
RefSeqiNP_001713.2. NM_001722.2.
UniGeneiHs.148342.
Hs.262907.

3D structure databases

ProteinModelPortaliP05423.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi107129. 39 interactors.
DIPiDIP-56155N.
IntActiP05423. 9 interactors.
MINTiMINT-3004820.
STRINGi9606.ENSP00000303088.

PTM databases

iPTMnetiP05423.
PhosphoSitePlusiP05423.

Polymorphism and mutation databases

BioMutaiPOLR3D.
DMDMi29429159.

Proteomic databases

EPDiP05423.
MaxQBiP05423.
PaxDbiP05423.
PeptideAtlasiP05423.
PRIDEiP05423.

Protocols and materials databases

DNASUi661.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000306433; ENSP00000303088; ENSG00000168495.
ENST00000397802; ENSP00000380904; ENSG00000168495.
GeneIDi661.
KEGGihsa:661.
UCSCiuc003xbl.4. human.

Organism-specific databases

CTDi661.
GeneCardsiPOLR3D.
HGNCiHGNC:1080. POLR3D.
HPAiHPA067875.
HPA068461.
MIMi187280. gene.
neXtProtiNX_P05423.
OpenTargetsiENSG00000168495.
PharmGKBiPA25390.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3122. Eukaryota.
ENOG410XPDH. LUCA.
GeneTreeiENSGT00390000013948.
HOGENOMiHOG000008080.
HOVERGENiHBG039777.
InParanoidiP05423.
KOiK03026.
OMAiWDKTVDM.
OrthoDBiEOG091G13BB.
PhylomeDBiP05423.

Enzyme and pathway databases

BioCyciZFISH:HS09773-MONOMER.
ReactomeiR-HSA-1834949. Cytosolic sensors of pathogen-associated DNA.
R-HSA-73780. RNA Polymerase III Chain Elongation.
R-HSA-73980. RNA Polymerase III Transcription Termination.
R-HSA-749476. RNA Polymerase III Abortive And Retractive Initiation.
R-HSA-76061. RNA Polymerase III Transcription Initiation From Type 1 Promoter.
R-HSA-76066. RNA Polymerase III Transcription Initiation From Type 2 Promoter.
R-HSA-76071. RNA Polymerase III Transcription Initiation From Type 3 Promoter.

Miscellaneous databases

GeneWikiiPOLR3D.
GenomeRNAii661.
PROiP05423.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000168495.
CleanExiHS_POLR3D.
ExpressionAtlasiP05423. baseline and differential.
GenevisibleiP05423. HS.

Family and domain databases

InterProiIPR007811. RPC4.
[Graphical view]
PANTHERiPTHR13408. PTHR13408. 1 hit.
PfamiPF05132. RNA_pol_Rpc4. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRPC4_HUMAN
AccessioniPrimary (citable) accession number: P05423
Secondary accession number(s): Q6FI28
, Q9BPV7, Q9BPZ1, Q9BXB3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1988
Last sequence update: March 28, 2003
Last modified: November 2, 2016
This is version 161 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 8
    Human chromosome 8: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.