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Protein

Polymerase acidic protein

Gene

PA

Organism
Influenza C virus (strain C/Ann Arbor/1/1950)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

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/Ann Arbor/1/1950)
Taxonomic identifieri11553 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA negative-strand virusesOrthomyxoviridaeInfluenzavirus C
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Sus scrofa (Pig) [TaxID: 9823]
Proteomesi
  • UP000008286 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_00002694531 – 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

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

Structurei

3D structure databases

SMRiQ6I7C2.
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

Phylogenomic databases

OrthoDBiVOG0900002P.

Family and domain databases

HAMAPiMF_04063. INFV_PA. 1 hit.
InterProiView protein in InterPro
IPR037534. INFV_PA.
IPR001009. PA/PA-X.
PfamiView protein in Pfam
PF00603. Flu_PA. 1 hit.

Sequencei

Sequence statusi: Complete.

Q6I7C2-1 [UniParc]FASTAAdd to basket

« 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 FLKLRDESVP
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
PEVSLTQDVI TTEGLKQSEN KLPEPRSFPK 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

RGAKFFKID
Length:709
Mass (Da):81,881
Last modified:July 19, 2004 - v1
Checksum:iDBDDEBE8BA0E92EA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB126193 Genomic RNA. Translation: BAD24939.1.
RefSeqiYP_089654.1. NC_006309.1.

Genome annotation databases

GeneIDi3077358.
KEGGivg:3077358.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Similar proteinsi

Entry informationi

Entry nameiPA_INCAA
AccessioniPrimary (citable) accession number: Q6I7C2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 12, 2006
Last sequence update: July 19, 2004
Last modified: December 20, 2017
This is version 40 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families