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P03433

- PA_I34A1

UniProt

P03433 - PA_I34A1

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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: 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 transcibes 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

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

GO - Biological processi

  1. fusion of virus membrane with host plasma membrane Source: Reactome
  2. intracellular transport of virus Source: Reactome
  3. receptor-mediated endocytosis of virus by host cell Source: Reactome
  4. suppression by virus of host RNA polymerase II activity Source: UniProtKB-KW
  5. transcription, DNA-templated Source: InterPro
  6. uncoating of virus Source: Reactome
  7. viral entry into host cell Source: Reactome
  8. viral genome maturation Source: Reactome
  9. viral genome packaging Source: Reactome
  10. viral life cycle Source: Reactome
  11. viral process Source: Reactome
  12. viral release from host cell Source: Reactome
  13. viral transcription Source: Reactome
  14. virion assembly Source: Reactome
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

ReactomeiREACT_6145. Influenza Life Cycle.
REACT_6147. Entry of Influenza Virion into Host Cell via Endocytosis.
REACT_6179. NEP/NS2 Interacts with the Cellular Export Machinery.
REACT_6198. Viral RNP Complexes in the Host Cell Nucleus.
REACT_6212. Budding.
REACT_6235. Packaging of Eight RNA Segments.
REACT_6248. Transport of Ribonucleoproteins into the Host Nucleus.
REACT_6321. Uncoating of the Influenza Virion.
REACT_6326. Release.
REACT_6351. Fusion of the Influenza Virion to the Host Cell Endosome.
REACT_6354. Viral Messenger RNA Synthesis.
REACT_9434. vRNP Assembly.
REACT_9491. Viral mRNA Translation.
REACT_9497. vRNA Synthesis.
REACT_9527. cRNA Synthesis.

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 negative-strand virusesOrthomyxoviridaeInfluenzavirus A
Virus hostiAves [TaxID: 8782]
Homo sapiens (Human) [TaxID: 9606]
Sus scrofa (Pig) [TaxID: 9823]
ProteomesiUP000009255: Genome

Subcellular locationi

Host cytoplasm. Host nucleus
Note: PB1 and PA are transported in the host nucleus as a complex.3 Publications

GO - Cellular componenti

  1. cytosol Source: Reactome
  2. endosome lumen Source: Reactome
  3. extracellular region Source: Reactome
  4. nucleoplasm Source: Reactome
Complete GO annotation...

Keywords - Cellular componenti

Host cytoplasm, Host nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 716716Polymerase acidic proteinPRO_0000078796Add
BLAST

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. 35 interactions.
MINTiMINT-3375052.

Structurei

Secondary structure

1
716
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi273 – 2753Combined sources
Beta strandi290 – 2945Combined sources
Turni298 – 3014Combined sources
Helixi303 – 3119Combined sources
Beta strandi317 – 3248Combined sources
Beta strandi327 – 3293Combined sources
Helixi331 – 34515Combined sources
Helixi364 – 3696Combined sources
Helixi406 – 4149Combined sources
Beta strandi419 – 4213Combined sources
Helixi437 – 45014Combined sources
Beta strandi451 – 4533Combined sources
Helixi454 – 47421Combined sources
Beta strandi477 – 4793Combined sources
Beta strandi481 – 49010Combined sources
Beta strandi496 – 50611Combined sources
Beta strandi517 – 52610Combined sources
Helixi530 – 5323Combined sources
Turni534 – 5396Combined sources
Beta strandi541 – 5488Combined sources
Beta strandi559 – 57113Combined sources
Helixi572 – 5798Combined sources
Helixi580 – 5823Combined sources
Helixi583 – 60220Combined sources
Helixi608 – 6136Combined sources
Beta strandi619 – 6246Combined sources
Beta strandi627 – 6315Combined sources
Helixi633 – 64917Combined sources
Helixi653 – 67422Combined sources
Helixi686 – 6916Combined sources
Helixi698 – 71417Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2ZNLX-ray2.30A239-716[»]
ProteinModelPortaliP03433.
SMRiP03433. Positions 257-715.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP03433.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni124 – 13916Nuclear localization signal 1 (NLS1)1 PublicationAdd
BLAST
Regioni184 – 24764Nuclear localization signal 2 (NLS2)1 PublicationAdd
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. Align

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)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti550 – 5501I → L in CAA24295. (PubMed:7060132)Curated

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.

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 .
RefSeqi NP_040986.1. NC_002022.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2ZNL X-ray 2.30 A 239-716 [» ]
ProteinModelPortali P03433.
SMRi P03433. Positions 257-715.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-43996N.
IntActi P03433. 35 interactions.
MINTi MINT-3375052.

Chemistry

BindingDBi P03433.
ChEMBLi CHEMBL3137263.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 956535.

Enzyme and pathway databases

Reactomei REACT_6145. Influenza Life Cycle.
REACT_6147. Entry of Influenza Virion into Host Cell via Endocytosis.
REACT_6179. NEP/NS2 Interacts with the Cellular Export Machinery.
REACT_6198. Viral RNP Complexes in the Host Cell Nucleus.
REACT_6212. Budding.
REACT_6235. Packaging of Eight RNA Segments.
REACT_6248. Transport of Ribonucleoproteins into the Host Nucleus.
REACT_6321. Uncoating of the Influenza Virion.
REACT_6326. Release.
REACT_6351. Fusion of the Influenza Virion to the Host Cell Endosome.
REACT_6354. Viral Messenger RNA Synthesis.
REACT_9434. vRNP Assembly.
REACT_9491. Viral mRNA Translation.
REACT_9497. vRNA Synthesis.
REACT_9527. cRNA Synthesis.

Miscellaneous databases

EvolutionaryTracei P03433.

Family and domain databases

InterProi IPR001009. RNA-dir_pol_influenzavirus.
[Graphical view ]
Pfami PF00603. Flu_PA. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Nucleotide sequences of influenza virus segments 1 and 3 reveal mosaic structure of a small viral RNA segment."
    Fields S., Winter G.
    Cell 28:303-313(1982) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  3. "Efficient generation and growth of influenza virus A/PR/8/34 from eight cDNA fragments."
    de Wit E., Spronken M.I.J., Bestebroer T.M., Rimmelzwaan G.F., Osterhaus A.D.M.E., Fouchier R.A.M.
    Virus Res. 103:155-161(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA], REVERSE GENETICS.
  4. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  5. "Complex structure of the nuclear translocation signal of influenza virus polymerase PA subunit."
    Nieto A., de la Luna S., Barcena J., Portela A., Ortin J.
    J. Gen. Virol. 75:29-36(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.
    Strain: A/Victoria/3/75.
  6. "The PA influenza virus polymerase subunit is a phosphorylated protein."
    Sanz-Ezquerro J.J., Fernandez-Santaren J., Sierra T., Aragon T., Ortega J., Ortin J., Smith G.L., Nieto A.
    J. Gen. Virol. 79:471-478(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION.
    Strain: A/Victoria/3/75.
  7. "The PA subunit is required for efficient nuclear accumulation of the PB1 subunit of the influenza A virus RNA polymerase complex."
    Fodor E., Smith M.
    J. Virol. 78:9144-9153(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, FUNCTION.
    Strain: A/WSN/33.
  8. "The cap-snatching endonuclease of influenza virus polymerase resides in the PA subunit."
    Dias A., Bouvier D., Crepin T., McCarthy A.A., Hart D.J., Baudin F., Cusack S., Ruigrok R.W.
    Nature 458:914-918(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
    Strain: A/Victoria/3/1975.
  9. "A novel function of the N-terminal domain of PA in assembly of influenza A virus RNA polymerase."
    Suzuki T., Ainai A., Nagata N., Sata T., Sawa H., Hasegawa H.
    Biochem. Biophys. Res. Commun. 414:719-726(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH PB1, FUNCTION, SUBCELLULAR LOCATION.
  10. "The structural basis for an essential subunit interaction in influenza virus RNA polymerase."
    Obayashi E., Yoshida H., Kawai F., Shibayama N., Kawaguchi A., Nagata K., Tame J.R., Park S.Y.
    Nature 454:1127-1131(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.3 ANGSTROMS) OF 239-716.

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 26, 2014
This is version 89 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

External Data

Dasty 3