Q3HM39 (PA_I18A0) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Polymerase acidic protein

Alternative name(s):
RNA-directed RNA polymerase subunit P2

Gene names

Name:

PA

Organism

Influenza A virus (strain A/Brevig Mission/1/1918 H1N1) (Influenza A virus (strain A/South Carolina/1/1918 H1N1)) [Complete proteome]

Taxonomic identifier

88776 [NCBI]

Taxonomic lineage

Viruses › ssRNA viruses › ssRNA negative-strand viruses › Orthomyxoviridae › Influenzavirus A › Influenza A virus › H1N1 subtype

Virus host

Aves [TaxID: 8782]
Homo sapiens (Human) [TaxID: 9606]
Sus scrofa (Pig) [TaxID: 9823]

Protein attributes

Sequence length	716 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	Implicated in endonuclease cleavage of capped RNA primers. Displays an elongation factor activity in viral RNA synthesis. Dispensable for viral transcription, but not replication By similarity.
Subunit structure	Influenza RNA polymerase is composed of three subunits: PB1, PB2 and PA By similarity.
Post-translational modification	Phosphorylated on serines and threonines by host kinases, including human casein kinase II By similarity.
Miscellaneous	South Carolina isolate has been sequenced from formalid fixed-lung tissues of a 21-year-old male which died in 1918 at Ft. Jackson, SC. Brevig Mission isolate has been sequenced from lung tissues of an Inuit woman buried in the permafrost in a gravesite near Brevig Mission, Alaska. This sample was recovered by John Hultin, retired pathologist.
Sequence similarities	Belongs to the influenza viruses PA family.

Ontologies

Keywords
Biological process	Host gene expression shutoff by virus Host transcription shutoff by virus Host-virus interaction Inhibition of host RNA polymerase II by virus
Coding sequence diversity	Ribosomal frameshifting
PTM	Phosphoprotein
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	suppression by virus of host RNA polymerase II activity Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: InterPro
Molecular_function	RNA binding Inferred from electronic annotation. Source: InterPro RNA-directed RNA polymerase activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by ribosomal frameshifting. [Align] [Select]

Isoform PA (identifier: Q3HM39-1)

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.

Isoform PA-X (identifier: P0CK68-1)

The sequence of this isoform can be found in the external entry P0CK68.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 716	716	Polymerase acidic protein		PRO_0000310571

Sequences

	Sequence		Length	Mass (Da)
	Isoform PA [UniParc]. Last modified November 8, 2005. Version 1. Checksum: 21ACA43508075CFE	FASTA	716	82,599
	10 20 30 40 50 60 MEDFVRQCFN PMIVELAEKA MKEYGEDLKI ETNKFAAICT HLEVCFMYSD FHFINERGES 70 80 90 100 110 120 IIVESGDPNA LLKHRFEIIE GRDRTMAWTV VNSICNTTGA EKPKFLPDLY DYKENRFIEI 130 140 150 160 170 180 GVTRREVHIY YLEKANKIKS EKTHIHIFSF TGEEMATKAD YTLDEESRAR IKTRLFTIRQ 190 200 210 220 230 240 EMASRGLWDS FRQSERGEET IEERFEITGT MRRLADQSLP PNFSSLENFR AYVDGFEPNG 250 260 270 280 290 300 YIEGKLSQMS KEVNARIEPF LKTTPRPLRL PDGPPCSQRS KFLLMDALKL SIEDPSHEGE 310 320 330 340 350 360 GIPLYDAIKC MRTFFGWKEP NVVKPHEKGI NPNYLLAWKQ VLAELQDIEN EEKIPKTKNM 370 380 390 400 410 420 KKTSQLKWAL GENMAPEKVD FDDCKDVSDL KQYDSDEPEL RSLASWIQSE FNKACELTDS 430 440 450 460 470 480 SWIELDEIGE DVAPIEHIAS MRRNYFTAEV SHCRATEYIM KGVYINTALL NASCAAMDDF 490 500 510 520 530 540 QLIPMISKCR TKEGRRKTNL YGFIIKGRSH LRNDTDVVNF VSMEFSLTDP RLEPHKWEKY 550 560 570 580 590 600 CVLEIGDMLL RSAIGQVSRP MFLYVRTNGT SKIKMKWGME MRRCLLQSLQ QIESMIEAES 610 620 630 640 650 660 SVKEKDMTKE FFENKSETWP IGESPKGVEE GSIGKVCRTL LAKSVFNSLY ASPQLEGFSA 670 680 690 700 710 ESRKLLLIVQ ALRDNLEPGT FDLGGLYEAI EECLINDPWV LLNASWFNSF LTHALR
	Isoform PA-X [UniParc]. See P0CK68.		–	–

References

[1]

"Characterization of the 1918 influenza virus polymerase genes." Taubenberger J.K., Reid A.H., Lourens R.M., Wang R., Jin G., Fanning T.G. Nature 437:889-893(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].

[2]

"An overlapping protein-coding region in influenza A virus segment 3 modulates the host response." Jagger B.W., Wise H.M., Kash J.C., Walters K.A., Wills N.M., Xiao Y.L., Dunfee R.L., Schwartzman L.M., Ozinsky A., Bell G.L., Dalton R.M., Lo A., Efstathiou S., Atkins J.F., Firth A.E., Taubenberger J.K., Digard P. Science 337:199-204(2012) [PubMed] [Europe PMC] [Abstract] Cited for: ALTERNATIVE SPLICING (ISOFORM PA-X).

Cross-references

Sequence databases
EMBL GenBank DDBJ	DQ208311 mRNA. Translation: ABA55040.1.
3D structure databases
ProteinModelPortal	Q3HM39.
SMR	Q3HM39. Positions 257-716.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
InterPro	IPR001009. RNA-dir_pol_influenzavirus. [Graphical view]
Pfam	PF00603. Flu_PA. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

PA_I18A0

Accession

Primary (citable) accession number: Q3HM39

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 13, 2007
Last sequence update:	November 8, 2005
Last modified:	January 9, 2013
This is version 25 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program