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Protein

Polymerase acidic protein

Gene

PA

Organism
Influenza A virus (strain A/Puerto Rico/8/1934 H1N1)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-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. 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.3 Publications

GO - Molecular functioni

GO - Biological processi

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

Enzyme and pathway databases

BRENDAi2.7.7.48. 7479.
ReactomeiR-HSA-168255. Influenza Life Cycle.
R-HSA-168271. Transport of Ribonucleoproteins into the Host Nucleus.
R-HSA-168275. Entry of Influenza Virion into Host Cell via Endocytosis.
R-HSA-168288. Fusion of the Influenza Virion to the Host Cell Endosome.
R-HSA-168298. Release.
R-HSA-168302. Budding.
R-HSA-168303. Packaging of Eight RNA Segments.
R-HSA-168325. Viral Messenger RNA Synthesis.
R-HSA-168330. Viral RNP Complexes in the Host Cell Nucleus.
R-HSA-168333. NEP/NS2 Interacts with the Cellular Export Machinery.
R-HSA-168336. Uncoating of the Influenza Virion.
R-HSA-192814. vRNA Synthesis.
R-HSA-192823. Viral mRNA Translation.
R-HSA-192869. cRNA Synthesis.
R-HSA-192905. vRNP Assembly.

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/Puerto Rico/8/1934 H1N1)
Taxonomic identifieri211044 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA negative-strand virusesOrthomyxoviridaeInfluenzavirus A
Virus hostiAves [TaxID: 8782]
Homo sapiens (Human) [TaxID: 9606]
Sus scrofa (Pig) [TaxID: 9823]
Proteomesi
  • UP000009255 Componenti: Genome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Host cytoplasm, Host nucleus

Pathology & Biotechi

Chemistry databases

ChEMBLiCHEMBL1169598.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000787961 – 716Polymerase acidic proteinAdd BLAST716

Post-translational modificationi

Phosphorylated on serines and threonines by host kinases, including human casein kinase II.1 Publication

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).1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
MP034852EBI-2547616,EBI-2547543

Protein-protein interaction databases

DIPiDIP-43996N.
IntActiP03433. 44 interactors.
MINTiMINT-3375052.

Chemistry databases

BindingDBiP03433.

Structurei

Secondary structure

1716
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi1 – 8Combined sources8
Helixi11 – 23Combined sources13
Turni28 – 30Combined sources3
Helixi32 – 50Combined sources19
Turni73 – 75Combined sources3
Beta strandi76 – 78Combined sources3
Helixi84 – 98Combined sources15
Beta strandi108 – 111Combined sources4
Turni112 – 115Combined sources4
Beta strandi116 – 125Combined sources10
Helixi127 – 138Combined sources12
Beta strandi141 – 149Combined sources9
Beta strandi154 – 156Combined sources3
Helixi157 – 159Combined sources3
Helixi165 – 184Combined sources20
Helixi188 – 194Combined sources7
Beta strandi273 – 275Combined sources3
Beta strandi290 – 294Combined sources5
Turni298 – 301Combined sources4
Helixi303 – 311Combined sources9
Beta strandi317 – 324Combined sources8
Beta strandi327 – 329Combined sources3
Helixi331 – 345Combined sources15
Helixi364 – 369Combined sources6
Helixi406 – 414Combined sources9
Beta strandi419 – 421Combined sources3
Helixi437 – 450Combined sources14
Beta strandi451 – 453Combined sources3
Helixi454 – 474Combined sources21
Beta strandi477 – 479Combined sources3
Beta strandi481 – 490Combined sources10
Beta strandi496 – 506Combined sources11
Beta strandi517 – 526Combined sources10
Helixi530 – 532Combined sources3
Turni534 – 539Combined sources6
Beta strandi541 – 548Combined sources8
Beta strandi559 – 571Combined sources13
Helixi572 – 579Combined sources8
Helixi580 – 582Combined sources3
Helixi583 – 602Combined sources20
Helixi608 – 613Combined sources6
Beta strandi619 – 624Combined sources6
Beta strandi627 – 631Combined sources5
Helixi633 – 649Combined sources17
Helixi653 – 674Combined sources22
Helixi686 – 691Combined sources6
Helixi698 – 714Combined sources17

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2ZNLX-ray2.30A239-716[»]
4YYLX-ray1.91A1-50[»]
A73-197[»]
4ZHZX-ray2.50A1-50[»]
A73-197[»]
4ZI0X-ray1.80A1-50[»]
A73-197[»]
4ZQQX-ray1.80A1-50[»]
A73-197[»]
5FDDX-ray2.51A1-50[»]
A73-197[»]
5FDGX-ray2.10A1-50[»]
A73-197[»]
5I13X-ray2.15A1-50[»]
A73-197[»]
5JHTX-ray1.75A1-50[»]
A73-197[»]
5JHVX-ray2.75A/B1-50[»]
A/B73-197[»]
ProteinModelPortaliP03433.
SMRiP03433.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP03433.

Family & Domainsi

Motif

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

Sequence similaritiesi

Belongs to the influenza viruses PA family.Curated

Phylogenomic databases

KOiK19390.

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: P03433-1) [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 MKEYGEDLKI ETNKFAAICT HLEVCFMYSD
60 70 80 90 100
FHFINEQGES IIVELGDPNA LLKHRFEIIE GRDRTMAWTV VNSICNTTGA
110 120 130 140 150
EKPKFLPDLY DYKENRFIEI GVTRREVHIY YLEKANKIKS EKTHIHIFSF
160 170 180 190 200
TGEEMATKAD YTLDEESRAR IKTRLFTIRQ EMASRGLWDS FRQSERGEET
210 220 230 240 250
IEERFEITGT MRKLADQSLP PNFSSLENFR AYVDGFEPNG YIEGKLSQMS
260 270 280 290 300
KEVNARIEPF LKTTPRPLRL PNGPPCSQRS KFLLMDALKL SIEDPSHEGE
310 320 330 340 350
GIPLYDAIKC MRTFFGWKEP NVVKPHEKGI NPNYLLSWKQ VLAELQDIEN
360 370 380 390 400
EEKIPKTKNM KKTSQLKWAL GENMAPEKVD FDDCKDVGDL KQYDSDEPEL
410 420 430 440 450
RSLASWIQNE FNKACELTDS SWIELDEIGE DVAPIEHIAS MRRNYFTSEV
460 470 480 490 500
SHCRATEYIM KGVYINTALL NASCAAMDDF QLIPMISKCR TKEGRRKTNL
510 520 530 540 550
YGFIIKGRSH LRNDTDVVNF VSMEFSLTDP RLEPHKWEKY CVLEIGDMLI
560 570 580 590 600
RSAIGQVSRP MFLYVRTNGT SKIKMKWGME MRRCLLQSLQ QIESMIEAES
610 620 630 640 650
SVKEKDMTKE FFENKSETWP IGESPKGVEE SSIGKVCRTL LAKSVFNSLY
660 670 680 690 700
ASPQLEGFSA ESRKLLLIVQ ALRDNLEPGT FDLGGLYEAI EECLINDPWV
710
LLNASWFNSF LTHALS
Length:716
Mass (Da):82,588
Last modified:October 2, 2007 - v2
Checksum:i8829F53525814394
GO
Isoform PA-X (identifier: P0CK64-1) [UniParc]FASTAAdd to basket
The sequence of this isoform can be found in the external entry P0CK64.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:252
Mass (Da):29,423
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti550I → L in CAA24295 (PubMed:7060132).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
V01106 Genomic RNA. Translation: CAA24295.1.
AF389117 Genomic RNA. Translation: AAM75157.1.
EF467820 Genomic RNA. Translation: ABO21708.1.
CY009449 Genomic RNA. Translation: ABD77682.1.
RefSeqiNP_040986.1. NC_002022.1.

Genome annotation databases

GeneIDi956535.
KEGGivg:956535.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
V01106 Genomic RNA. Translation: CAA24295.1.
AF389117 Genomic RNA. Translation: AAM75157.1.
EF467820 Genomic RNA. Translation: ABO21708.1.
CY009449 Genomic RNA. Translation: ABD77682.1.
RefSeqiNP_040986.1. NC_002022.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2ZNLX-ray2.30A239-716[»]
4YYLX-ray1.91A1-50[»]
A73-197[»]
4ZHZX-ray2.50A1-50[»]
A73-197[»]
4ZI0X-ray1.80A1-50[»]
A73-197[»]
4ZQQX-ray1.80A1-50[»]
A73-197[»]
5FDDX-ray2.51A1-50[»]
A73-197[»]
5FDGX-ray2.10A1-50[»]
A73-197[»]
5I13X-ray2.15A1-50[»]
A73-197[»]
5JHTX-ray1.75A1-50[»]
A73-197[»]
5JHVX-ray2.75A/B1-50[»]
A/B73-197[»]
ProteinModelPortaliP03433.
SMRiP03433.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-43996N.
IntActiP03433. 44 interactors.
MINTiMINT-3375052.

Chemistry databases

BindingDBiP03433.
ChEMBLiCHEMBL1169598.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi956535.
KEGGivg:956535.

Phylogenomic databases

KOiK19390.

Enzyme and pathway databases

BRENDAi2.7.7.48. 7479.
ReactomeiR-HSA-168255. Influenza Life Cycle.
R-HSA-168271. Transport of Ribonucleoproteins into the Host Nucleus.
R-HSA-168275. Entry of Influenza Virion into Host Cell via Endocytosis.
R-HSA-168288. Fusion of the Influenza Virion to the Host Cell Endosome.
R-HSA-168298. Release.
R-HSA-168302. Budding.
R-HSA-168303. Packaging of Eight RNA Segments.
R-HSA-168325. Viral Messenger RNA Synthesis.
R-HSA-168330. Viral RNP Complexes in the Host Cell Nucleus.
R-HSA-168333. NEP/NS2 Interacts with the Cellular Export Machinery.
R-HSA-168336. Uncoating of the Influenza Virion.
R-HSA-192814. vRNA Synthesis.
R-HSA-192823. Viral mRNA Translation.
R-HSA-192869. cRNA Synthesis.
R-HSA-192905. vRNP Assembly.

Miscellaneous databases

EvolutionaryTraceiP03433.

Family and domain databases

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

Entry informationi

Entry nameiPA_I34A1
AccessioniPrimary (citable) accession number: P03433
Secondary accession number(s): A4GXH3, Q20N31, Q8JUU6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: October 2, 2007
Last modified: November 2, 2016
This is version 105 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

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

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 one 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.