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Protein

Polymerase acidic protein

Gene

PA

Organism
Influenza A virus (strain A/Swine/Iowa/15/1930 H1N1)
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 bindingi80Manganese 2UniRule annotation1
Metal bindingi108Manganese 1UniRule annotation1
Metal bindingi108Manganese 2UniRule annotation1
Metal bindingi119Manganese 1UniRule annotation1
Metal bindingi120Manganese 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
OrganismiInfluenza A virus (strain A/Swine/Iowa/15/1930 H1N1)
Taxonomic identifieri380342 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA negative-strand virusesOrthomyxoviridaeAlphainfluenzavirus
Virus hostiAves [TaxID: 8782]
Homo sapiens (Human) [TaxID: 9606]
Sus scrofa (Pig) [TaxID: 9823]

Subcellular locationi

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

GO - Cellular componenti

Keywords - Cellular componenti

Host cytoplasm, Host nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000788041 – 716Polymerase acidic proteinAdd BLAST716

Post-translational modificationi

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

Keywords - PTMi

Phosphoprotein

Proteomic databases

PRIDEiP13175

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 annotationBy similarity

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1YN6X-ray2.20C224-233[»]
1YN7X-ray2.20C224-233[»]
3PQYX-ray3.19C/H/M/R224-233[»]
ProteinModelPortaliP13175
SMRiP13175
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP13175

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi124 – 139Nuclear localization signal 1 (NLS1)UniRule annotationBy similarityAdd BLAST16
Motifi184 – 247Nuclear localization signal 2 (NLS2)UniRule annotationBy similarityAdd BLAST64

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: P13175-1) [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 PMIVELAEKA MKEYGEDPRI ETNKFAAICT HMEVSFMYSD
60 70 80 90 100
FHFINERGES IIVESGDPNA LLKHRFEIIE GRDRAMAWTV VNSICNTTGV
110 120 130 140 150
GKPKFLPDLY DYKEDRFIEI GVTRREVHIY YLEKANKIKS EETHIHIFSF
160 170 180 190 200
TGEEMATKAD YTLDEESRAR IKTRLFTIRQ EMASRGLWDS FRQSERGEET
210 220 230 240 250
IEERFEITGT MRRLADQSLP PNFSSLENFR AYVDGFEPNG YIEGKLSQMS
260 270 280 290 300
KEVNARIEPF LKTTPRPLRL PGGPPCFQRS KFLLMDALKL SIEDPSHEGE
310 320 330 340 350
GIPLYDAIKC MKTFFGWKEP IIVKPHEKGI NSNYLLAWKQ VLAEIQDIES
360 370 380 390 400
EKKVPRTKNI KKTSQLKWAL GENMAPEKVD FDDCKDVSDL KQYDSDEPEF
410 420 430 440 450
RSLASWIQSE FNKACELTDS SWIELDEIGE DVAPIEHIAS MRRNYFTAEV
460 470 480 490 500
SHCRATEYIM KGVYINTALL NASCAAMDDF QLIPMISKCR TKEGRRKTNL
510 520 530 540 550
YGFIIKGRSH LRNDTDVVNF VSMEFSLTDP RLEPHKWEKY CVLEIGDMLL
560 570 580 590 600
RTSIGQVSRP MFLYVRTNGT SKIKMKWGME MRRCLLQSLQ QIESMIEAES
610 620 630 640 650
SVKEKDMTKE FFENKSETWP IGESPKGVEE GSIGKVCRTL LAKSVFNSLY
660 670 680 690 700
ASPQLEGFSA ESRKLLLIVQ ALRDNLEPGT FDLGGLYESI EECLINDPWV
710
LLNASWFNSF LTHALR
Length:716
Mass (Da):82,566
Last modified:January 1, 1990 - v1
Checksum:iDD7F68F2E2BB5075
GO
Isoform PA-X (identifier: P0DJV0-1) [UniParc]FASTAAdd to basket
The sequence of this isoform can be found in the external entry P0DJV0.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:252
Mass (Da):29,201
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M26076 Genomic RNA Translation: AAA43675.1

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Entry informationi

Entry nameiPA_I30A0
AccessioniPrimary (citable) accession number: P13175
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 1, 1990
Last sequence update: January 1, 1990
Last modified: May 23, 2018
This is version 85 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

3D-structure

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