P15659 (PA_I33A0) 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/Wilson-Smith/1933 H1N1) (Influenza A virus (strain A/WS/1933 H1N1)) [Complete proteome]

Taxonomic identifier

381518 [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 protein 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.
Subunit structure	Influenza RNA polymerase is composed of three subunits: PB1, PB2 and PA.
Post-translational modification	Phosphorylated on serines and threonines by host kinases, including human casein kinase II.
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	3D-structure 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: P15659-1)

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: P0DJW8-1)

The sequence of this isoform can be found in the external entry P0DJW8.
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_0000078801

Experimental info

Mutagenesis

226

1

L → P: Confers temperature sensitivity. Ref.2

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

716

Helix Strand Turn

Details...

Beta strand

273 – 275

3

Beta strand

290 – 294

5

Turn

298 – 301

4

Helix

303 – 312

10

Beta strand

317 – 324

8

Helix

331 – 350

20

Beta strand

351 – 353

3

Beta strand

356 – 360

5

Helix

364 – 369

6

Helix

406 – 415

10

Beta strand

419 – 421

3

Helix

437 – 450

14

Helix

454 – 475

22

Turn

476 – 478

3

Beta strand

479 – 490

12

Beta strand

496 – 506

11

Beta strand

517 – 526

10

Helix

534 – 537

4

Beta strand

541 – 550

10

Beta strand

555 – 571

17

Helix

572 – 579

8

Helix

580 – 582

3

Helix

583 – 603

21

Helix

608 – 612

5

Helix

633 – 649

17

Helix

653 – 675

23

Helix

686 – 691

6

Helix

698 – 712

15

Sequences

	Sequence		Length	Mass (Da)
	Isoform PA [UniParc]. Last modified April 1, 1990. Version 1. Checksum: 2854E89F8949AE5E	FASTA	716	82,531
	10 20 30 40 50 60 MEDFVRQCFN PMIVELAEKA MKEYGEDLKI ETNKFAAICT HLEVCFMYSD FHFIDEQGES 70 80 90 100 110 120 IVVELGDPNA LLKHRFEIIE GRDRTIAWTV INSICNTTGA EKPKFLPDLY DYKKNRFIEI 130 140 150 160 170 180 GVTRREVHIY YLEKANKIKS EKTHIHIFSF TGEEMATKAD YTLDEESRAR IKTRLFTIRQ 190 200 210 220 230 240 EMASRGLWDS FRQSERGEET IEERFEITGT MRKLADQSLP PNFSSLENFR AYVDGFEPNG 250 260 270 280 290 300 YIEGKLSQMS KEVNARIEPF LKSTPRPLRL PDGPPCSQRS KFLLMDALKL SIEDPSHEGE 310 320 330 340 350 360 GIPLYDAIKC MRTFFGWKEP NVVKPHEKGI NPNYLLSWKQ VLAELQDIEN EEKIPRTKNM 370 380 390 400 410 420 KKTSQLKWAL GENMAPEKVD FDDCKDVGDL KQYDSDEPEL RSLASWIQNE FNKACELTDS 430 440 450 460 470 480 SWIELDEIGE DAAPIEHIAS MRRNYFTAEV SHCRATEYIM KGVYINTALL NASCAAMDDF 490 500 510 520 530 540 QLIPMISKCR TKEGRRKTNL YGFIIKGRSH LRNDTDVVNF VSMEFSLTDP RLEPHKWEKY 550 560 570 580 590 600 CVLEVGDMLL RSAIGHVSRP MFLYVRTNGT SKIKMKWGME MRRCLLQSLQ QIESMIEAES 610 620 630 640 650 660 SVKEKDMTKE FFENKSETWP VGESPKGVEE GSIGKVCRTL LAKSVFNSLY ASPQLEGFSA 670 680 690 700 710 ESRKLLLIVQ ALRDNLEPGT FDLGGLYEAI EECLINDPWV LLNASWFNSF LTHALR
	Isoform PA-X [UniParc]. See P0DJW8.		–	–

References

[1]	"Nucleotide sequence of the PA gene of influenza A/WSN/33(H1N1)." Odagiri T., Tobita K. Nucleic Acids Res. 18:654-654(1990) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]	"Involvement of influenza virus PA subunit in assembly of functional RNA polymerase complexes." Kawaguchi A., Naito T., Nagata K. J. Virol. 79:732-744(2005) [PubMed] [Europe PMC] [Abstract] Cited for: MUTAGENESIS OF LEU-226.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X17336 Genomic RNA. Translation: CAA35212.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
4IUJ	X-ray	1.90	A	254-716	[»]

ProteinModelPortal

P15659.

SMR

P15659. Positions 257-716.

ModBase

Search...

Protein-protein interaction databases

MINT

MINT-8081657.

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_I33A0

Accession

Primary (citable) accession number: P15659

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 1, 1990
Last sequence update:	April 1, 1990
Last modified:	May 29, 2013
This is version 66 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program