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Protein

Polymerase acidic protein

Gene

PA

Organism
Influenza C virus (strain C/Johannesburg/1/1966)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Plays an essential role in viral RNA transcription and replication by forming the heterotrimeric polymerase complex together with PB1 and PB2 subunits. The complex transcribes viral mRNAs by using a unique mechanism called cap-snatching. It consists in the hijacking and cleavage of host capped pre-mRNAs. These short capped RNAs are then used as primers for viral mRNAs. The PB2 subunit is responsible for the binding of the 5' cap of cellular pre-mRNAs which are subsequently cleaved after 10-13 nucleotides by the PA subunit that carries the endonuclease activity.UniRule annotation

Cofactori

Mn2+UniRule annotationNote: Binds 2 manganese ions per subunit.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi41Manganese 1; via tele nitrogenUniRule annotation1
Metal bindingi65Manganese 2UniRule annotation1
Metal bindingi93Manganese 1UniRule annotation1
Metal bindingi93Manganese 2UniRule annotation1
Metal bindingi104Manganese 1UniRule annotation1
Metal bindingi105Manganese 1; via carbonyl oxygenUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionEndonuclease, Hydrolase, Nuclease
Biological processCap snatching, Eukaryotic host gene expression shutoff by virus, Eukaryotic host transcription shutoff by virus, Host gene expression shutoff by virus, Host-virus interaction, Inhibition of host RNA polymerase II by virus
LigandManganese, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Polymerase acidic proteinUniRule annotation (EC:3.1.-.-UniRule annotation)
Alternative name(s):
RNA-directed RNA polymerase subunit P2UniRule annotation
Gene namesi
Name:PAUniRule annotation
Synonyms:P3
OrganismiInfluenza C virus (strain C/Johannesburg/1/1966)
Taxonomic identifieri100673 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA negative-strand virusesOrthomyxoviridaeGammainfluenzavirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Sus scrofa (Pig) [TaxID: 9823]
Proteomesi
  • UP000138885 Componenti: Genome

Subcellular locationi

  • Host cytoplasm UniRule annotation
  • Host nucleus UniRule annotation
  • Note: PB1 and PA are transported in the host nucleus as a complex.UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Host cytoplasm, Host nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002699011 – 709Polymerase acidic proteinAdd BLAST709

Post-translational modificationi

Phosphorylated on serines and threonines by host kinases, including human casein kinase II.UniRule annotation

Keywords - PTMi

Phosphoprotein

Proteomic databases

PRIDEiQ9IMP5

Interactioni

Subunit structurei

Influenza RNA polymerase is composed of three subunits: PB1, PB2 and PA. Interacts (via C-terminus) with PB1 (via N-terminus).UniRule annotation

Protein-protein interaction databases

DIPiDIP-61786N
IntActiQ9IMP5, 2 interactors

Structurei

3D structure databases

SMRiQ9IMP5
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi109 – 124Nuclear localization signal 1 (NLS1)UniRule annotationAdd BLAST16
Motifi166 – 228Nuclear localization signal 2 (NLS2)UniRule annotationAdd BLAST63

Sequence similaritiesi

Belongs to the influenza viruses PA family.UniRule annotation

Family and domain databases

Gene3Di3.40.91.90, 1 hit
HAMAPiMF_04063 INFV_PA, 1 hit
InterProiView protein in InterPro
IPR037534 INFV_PA
IPR001009 PA/PA-X
IPR038372 PA/PA-X_sf
PfamiView protein in Pfam
PF00603 Flu_PA, 1 hit

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by ribosomal frameshifting. AlignAdd to basket

Isoform PA (identifier: Q9IMP5-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MSKTFAEIAE AFLEPEAVRI AKEAVEEYGD HERKIIQIGI HFQVCCMFCD
60 70 80 90 100
EYLSTNGSDR FVLIEGRKRG TAVSLQNELC KSYDLEPLPF LCDIFDREEK
110 120 130 140 150
QFVEIGITRK ADDSYFQSKF GKLGNSCKIF VFSYDGRLDK NCEGPMEEQK
160 170 180 190 200
LRIFSFLATA ADFLRKENMF NEIFLPDNEE TIIEMKKGKT FLELRDESVP
210 220 230 240 250
LPFQTYEQMK DYCEKFKGNP RELASKVSQM QSNIKLPIKH YEQNKFRQIR
260 270 280 290 300
LPKGPMAPYT HKFLMEEAWM FTKISDPERS RAGEILIDFF KKGNLSAIRP
310 320 330 340 350
KDKPLQGKYP IHYKNLWNQI KAAIADRTMV INENDHSEFL GGIGRASKKI
360 370 380 390 400
PEISLTQDVI TTEGLKQSEN KLPEPRSFPR WFNAEWMWAI KDSDLTGWVP
410 420 430 440 450
MAEYPPADNE LEDYAEHLNK TMEGVLQGTN CAREMGKCIL TVGALMTECR
460 470 480 490 500
LFPGKIKVVP IYARSKERKS MQEGLPVPSE MDCLFGICVK SKSHLNKDDG
510 520 530 540 550
MYTIITFEFS IREPNLEKHQ KYTVFEAGHT TVRMKKGESV IGREVPLYLY
560 570 580 590 600
CRTTALSKIK NDWLSKARRC FITTMDTVET ICLRESAKAE ENLVEKTLNE
610 620 630 640 650
KQMWIGKKNG ELIAQPLREA LRVQLVQQFY FCIYNDSQLE GFCNEQKKIL
660 670 680 690 700
MALEGDKKNK SSFGFNPEGL LEKIEECLIN NPMCLFMAQR LNELVIEASK

RGAKFFKTD
Length:709
Mass (Da):81,912
Last modified:April 14, 2009 - v3
Checksum:i9B402DD4E3F74CB8
GO
Isoform PA-X (identifier: Q9IMP5-2)
Sequence is not available
Length:
Mass (Da):

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF170574 Genomic RNA Translation: AAF89737.2

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Similar proteinsi

Entry informationi

Entry nameiPA_INCJH
AccessioniPrimary (citable) accession number: Q9IMP5
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 9, 2007
Last sequence update: April 14, 2009
Last modified: May 23, 2018
This is version 54 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

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