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P05423

- RPC4_HUMAN

UniProt

P05423 - RPC4_HUMAN

Protein

DNA-directed RNA polymerase III subunit RPC4

Gene

POLR3D

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 138 (01 Oct 2014)
      Sequence version 2 (28 Mar 2003)
      Previous versions | rss
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    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 similarity

    GO - Molecular functioni

    1. chromatin binding Source: Ensembl
    2. DNA binding Source: InterPro
    3. DNA-directed RNA polymerase activity Source: UniProtKB-KW

    GO - Biological processi

    1. defense response to virus Source: UniProtKB-KW
    2. gene expression Source: Reactome
    3. innate immune response Source: Reactome
    4. positive regulation of innate immune response Source: UniProtKB
    5. positive regulation of interferon-beta production Source: UniProtKB
    6. positive regulation of type I interferon production Source: Reactome
    7. termination of RNA polymerase III transcription Source: Reactome
    8. transcription elongation from RNA polymerase III promoter Source: Reactome
    9. transcription from RNA polymerase III promoter Source: Reactome

    Keywords - Biological processi

    Antiviral defense, Immunity, Innate immunity, Transcription

    Enzyme and pathway databases

    ReactomeiREACT_1036. RNA Polymerase III Transcription Initiation From Type 2 Promoter.
    REACT_22339. RNA Polymerase III Abortive And Retractive Initiation.
    REACT_347. RNA Polymerase III Transcription Initiation From Type 1 Promoter.
    REACT_571. RNA Polymerase III Transcription Initiation From Type 3 Promoter.
    REACT_63. RNA Polymerase III Transcription Termination.
    REACT_756. RNA Polymerase III Chain Elongation.

    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
    ProteomesiUP000005640: Chromosome 8

    Organism-specific databases

    HGNCiHGNC:1080. POLR3D.

    Subcellular locationi

    GO - Cellular componenti

    1. cytosol Source: Reactome
    2. DNA-directed RNA polymerase III complex Source: MGI
    3. nucleoplasm Source: Reactome

    Keywords - Cellular componenti

    DNA-directed RNA polymerase, Nucleus

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA25390.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11Removed1 Publication
    Chaini2 – 398397DNA-directed RNA polymerase III subunit RPC4PRO_0000073967Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei2 – 21N-acetylserine1 Publication

    Keywords - PTMi

    Acetylation

    Proteomic databases

    MaxQBiP05423.
    PaxDbiP05423.
    PeptideAtlasiP05423.
    PRIDEiP05423.

    PTM databases

    PhosphoSiteiP05423.

    Expressioni

    Gene expression databases

    ArrayExpressiP05423.
    BgeeiP05423.
    CleanExiHS_POLR3D.
    GenevestigatoriP05423.

    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. 29 interactions.
    DIPiDIP-56155N.
    IntActiP05423. 5 interactions.
    MINTiMINT-3004820.
    STRINGi9606.ENSP00000303088.

    Structurei

    3D structure databases

    ProteinModelPortaliP05423.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiNOG239914.
    HOGENOMiHOG000008080.
    HOVERGENiHBG039777.
    InParanoidiP05423.
    KOiK03026.
    OMAiWDKTVDM.
    OrthoDBiEOG7J180B.
    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

    MSEGNAAGEP STPGGPRPLL TGARGLIGRR PAPPLTPGRL PSIRSRDLTL    50
    GGVKKKTFTP NIISRKIKEE PKEEVTVKKE KRERDRDRQR EGHGRGRGRP 100
    EVIQSHSIFE QGPAEMMKKK GNWDKTVDVS DMGPSHIINI KKEKRETDEE 150
    TKQILRMLEK DDFLDDPGLR NDTRNMPVQL PLAHSGWLFK EENDEPDVKP 200
    WLAGPKEEDM EVDIPAVKVK EEPRDEEEEA KMKAPPKAAR KTPGLPKDVS 250
    VAELLRELSL TKEEELLFLQ LPDTLPGQPP TQDIKPIKTE VQGEDGQVVL 300
    IKQEKDREAK LAENACTLAD LTEGQVGKLL IRKSGRVQLL LGKVTLDVTM 350
    GTACSFLQEL VSVGLGDSRT GEMTVLGHVK HKLVCSPDFE SLLDHKHR 398
    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.
    The sequence BC003039 differs from that shown. Reason: Frameshift at position 175.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti9 – 1810EPSTPGGPRP → RPARQGPDL in AAA51838. (PubMed:3683386)Curated
    Sequence conflicti9 – 124EPST → RPAR in AAA72377. 1 PublicationCurated
    Sequence conflicti26 – 4015LIGRR…TPGRL → SSGGGGLPSPPAV(PubMed:3683386)CuratedAdd
    BLAST
    Sequence conflicti98 – 981G → R in AAA51838. (PubMed:3683386)Curated
    Sequence conflicti233 – 2331K → R in AAM18216. (PubMed:12391170)Curated
    Sequence conflicti286 – 2861P → L in AAM18216. (PubMed:12391170)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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.

    Genome annotation databases

    EnsembliENST00000306433; ENSP00000303088; ENSG00000168495.
    ENST00000397802; ENSP00000380904; ENSG00000168495.
    GeneIDi661.
    KEGGihsa:661.
    UCSCiuc003xbl.3. human.

    Polymorphism databases

    DMDMi29429159.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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 .
    CCDSi CCDS34858.1.
    PIRi A43700.
    RefSeqi NP_001713.2. NM_001722.2.
    UniGenei Hs.148342.

    3D structure databases

    ProteinModelPortali P05423.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 107129. 29 interactions.
    DIPi DIP-56155N.
    IntActi P05423. 5 interactions.
    MINTi MINT-3004820.
    STRINGi 9606.ENSP00000303088.

    Chemistry

    BindingDBi P05423.

    PTM databases

    PhosphoSitei P05423.

    Polymorphism databases

    DMDMi 29429159.

    Proteomic databases

    MaxQBi P05423.
    PaxDbi P05423.
    PeptideAtlasi P05423.
    PRIDEi P05423.

    Protocols and materials databases

    DNASUi 661.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000306433 ; ENSP00000303088 ; ENSG00000168495 .
    ENST00000397802 ; ENSP00000380904 ; ENSG00000168495 .
    GeneIDi 661.
    KEGGi hsa:661.
    UCSCi uc003xbl.3. human.

    Organism-specific databases

    CTDi 661.
    GeneCardsi GC08P022102.
    HGNCi HGNC:1080. POLR3D.
    MIMi 187280. gene.
    neXtProti NX_P05423.
    PharmGKBi PA25390.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG239914.
    HOGENOMi HOG000008080.
    HOVERGENi HBG039777.
    InParanoidi P05423.
    KOi K03026.
    OMAi WDKTVDM.
    OrthoDBi EOG7J180B.
    PhylomeDBi P05423.

    Enzyme and pathway databases

    Reactomei REACT_1036. RNA Polymerase III Transcription Initiation From Type 2 Promoter.
    REACT_22339. RNA Polymerase III Abortive And Retractive Initiation.
    REACT_347. RNA Polymerase III Transcription Initiation From Type 1 Promoter.
    REACT_571. RNA Polymerase III Transcription Initiation From Type 3 Promoter.
    REACT_63. RNA Polymerase III Transcription Termination.
    REACT_756. RNA Polymerase III Chain Elongation.

    Miscellaneous databases

    GeneWikii POLR3D.
    GenomeRNAii 661.
    NextBioi 2690.
    PROi P05423.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi P05423.
    Bgeei P05423.
    CleanExi HS_POLR3D.
    Genevestigatori P05423.

    Family and domain databases

    InterProi IPR007811. RPC4.
    [Graphical view ]
    PANTHERi PTHR13408. PTHR13408. 1 hit.
    Pfami PF05132. RNA_pol_Rpc4. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Isolation of the human gene that complements a temperature-sensitive cell cycle mutation in BHK cells."
      Ittmann M., Greco A., Basilico C.
      Mol. Cell. Biol. 7:3386-3393(1987) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    2. "Characterization of human RNA polymerase III identifies orthologues for Saccharomyces cerevisiae RNA polymerase III subunits."
      Hu P., Wu S., Sun Y., Yuan C.-C., Kobayashi R., Myers M.P., Hernandez N.
      Mol. Cell. Biol. 22:8044-8055(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA], IDENTIFICATION IN THE RNA POL III COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY, INTERACTION WITH POLR3E.
    3. "Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)."
      Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B.
      Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Lung and Lymph.
    5. "Reconstitution of transcription from the human U6 small nuclear RNA promoter with eight recombinant polypeptides and a partially purified RNA polymerase III complex."
      Chong S.S., Hu P., Hernandez N.
      J. Biol. Chem. 276:20727-20734(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1-50.
    6. "Promoter structure and cell cycle control of the BN51 cell cycle gene, which encodes a subunit of RNA polymerase III."
      Ittmann M.
      Submitted (OCT-1993) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-12.
    7. "RNA polymerase III detects cytosolic DNA and induces type I interferons through the RIG-I pathway."
      Chiu Y.-H., Macmillan J.B., Chen Z.J.
      Cell 138:576-591(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    8. "RIG-I-dependent sensing of poly(dA:dT) through the induction of an RNA polymerase III-transcribed RNA intermediate."
      Ablasser A., Bauernfeind F., Hartmann G., Latz E., Fitzgerald K.A., Hornung V.
      Nat. Immunol. 10:1065-1072(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    9. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    10. Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT SER-2, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS], CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS].

    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: October 1, 2014
    This is version 138 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

    External Data

    Dasty 3