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Protein

Polymerase acidic protein

Gene

PA

Organism
Influenza A virus (strain A/Swine/Wisconsin/1/1967 H1N1)
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. In addition of its function in viral transcription, PA also plays an essential role in viral RNA synthesis and promotes the formation of the trimeric polymerase complex.By similarity

GO - Molecular functioni

  1. RNA binding Source: InterPro
  2. RNA-directed RNA polymerase activity Source: InterPro

GO - Biological processi

  1. cap snatching Source: UniProtKB-KW
  2. suppression by virus of host RNA polymerase II activity Source: UniProtKB-KW
  3. transcription, DNA-templated Source: InterPro
Complete GO annotation...

Keywords - Biological processi

Cap 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

Names & Taxonomyi

Protein namesi
Recommended name:
Polymerase acidic protein
Alternative name(s):
RNA-directed RNA polymerase subunit P2
Gene namesi
Name:PA
OrganismiInfluenza A virus (strain A/Swine/Wisconsin/1/1967 H1N1)
Taxonomic identifieri382855 [NCBI]
Taxonomic lineageiVirusesssRNA negative-strand virusesOrthomyxoviridaeInfluenzavirus A
Virus hostiAves [TaxID: 8782]
Homo sapiens (Human) [TaxID: 9606]
Sus scrofa (Pig) [TaxID: 9823]

Subcellular locationi

Host cytoplasm. Host nucleus
Note: PB1 and PA are transported in the host nucleus as a complex.By similarity

GO - Cellular componenti

  1. host cell cytoplasm Source: UniProtKB-SubCell
  2. host cell nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Host cytoplasm, Host nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 716716Polymerase acidic proteinPRO_0000373004Add
BLAST

Post-translational modificationi

Phosphorylated on serines and threonines by host kinases, including human casein kinase II.By similarity

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).By similarity

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi124 – 13916Nuclear localization signal 1 (NLS1)By similarityAdd
BLAST
Motifi184 – 24764Nuclear localization signal 2 (NLS2)By similarityAdd
BLAST

Sequence similaritiesi

Belongs to the influenza viruses PA family.Curated

Family and domain databases

InterProiIPR001009. RNA-dir_pol_influenzavirus.
[Graphical view]
PfamiPF00603. Flu_PA. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

Isoform PA (identifier: A8C8X0-1) [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
MEDFVRQCFN PMIVELAEKT MKEYGENPKI ETNKFAAICT HMEVCFMYSD
60 70 80 90 100
FHFINERGES IIVEPGDSNA LLKHRFEIIE GRDRNMAWTV VNSICNTTGV
110 120 130 140 150
GKPRFLPDLY DYKEDRFIEI GVTRREIHIY YLEKANKIKS EETHIHIFSF
160 170 180 190 200
TGEEMATKAD YTLDEESRAR IKTRLFTIRQ EMASRGLWDS FRQSERGEET
210 220 230 240 250
IEERFEITGT MRRLADQSLP PNFSSLDNFR AYVDGFEPNG YIEGKLSQMS
260 270 280 290 300
REVNARIEPF LKTTPRPLRL PCGPPCFQRS KFLLMDALKL NIEDPSHEGE
310 320 330 340 350
GIPLYDAVRC MKTFFGWKEP TIVKPHEKGI NSNYLLAWKQ VLAEIQDIED
360 370 380 390 400
EKKIPRIKNM KKTSPLKWAL GENMAPEKVD FDDCKDVSDL KQYDSDEPEF
410 420 430 440 450
RSLASWIQNE FNKACELTDS SWLELDEIGE DVAPIEHIAS MRRNYFTAEV
460 470 480 490 500
SHCRATEYIM KGVYINTALL NASCAAMDDF QLIPMISKCR TKEGRRKTNL
510 520 530 540 550
YGFIIKGRSH LRNDTDVVNF VSMEFSLTDP RLEPHKWEKY CILEIGDMVL
560 570 580 590 600
RTAIGQVARP MFLYVRTNGT SKIKMKWGME MRRCLLQSLQ QIESMIEAES
610 620 630 640 650
SVKEKDMTKE FFENKSETWP IGESPKGVEE GSIGKVCRTL LAKSVFNCLY
660 670 680 690 700
ASPQLEGFSA ESRKLLLIVQ ALRDNLEPGT FDLGGLYESI EECLINDPWV
710
LLNASWFNSF LTHALR
Length:716
Mass (Da):82,810
Last modified:November 13, 2007 - v1
Checksum:iDE53B9A61E876EE9
GO
Isoform PA-X (identifier: P0DJV3-1) [UniParc]FASTAAdd to basket

The sequence of this isoform can be found in the external entry P0DJV3.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:252
Mass (Da):29,453
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CY026296 Viral cRNA. Translation: ABV82591.1.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CY026296 Viral cRNA. Translation: ABV82591.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Family and domain databases

InterProiIPR001009. RNA-dir_pol_influenzavirus.
[Graphical view]
PfamiPF00603. Flu_PA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. The NIAID Influenza Genome Sequencing Consortium
    Submitted (OCT-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Entry informationi

Entry nameiPA_I67A2
AccessioniPrimary (citable) accession number: A8C8X0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 5, 2009
Last sequence update: November 13, 2007
Last modified: February 4, 2015
This is version 26 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.