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Entry version 84 (02 Jun 2021)
Sequence version 1 (16 Jun 2009)
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Protein

Polymerase acidic protein

Gene

PA

Organism
Influenza A virus (strain swl A/California/04/2009 H1N1)
Status
Unreviewed-Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>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

Caution

Lacks conserved residue(s) required for the propagation of feature annotation.UniRule annotation

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

Mn2+UniRule annotationNote: Binds 2 manganese ions per subunit.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the 'Description' field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi41Manganese 1; via tele nitrogenUniRule annotationCombined sources1
Metal bindingi80Manganese 2UniRule annotation1
Metal bindingi108Manganese 1UniRule annotationCombined sources1
Metal bindingi108Manganese 2UniRule annotationCombined sources1
Metal bindingi119Manganese 1UniRule annotation1
Metal bindingi119Manganese 2Combined sources1
Metal bindingi120Manganese 1; via carbonyl oxygenUniRule annotationCombined sources1
Metal bindingi120Manganese 2; via carbonyl oxygenCombined sources1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionEndonucleaseUniRule annotationARBA annotation, Hydrolase, Nuclease
Biological processCap snatchingUniRule annotationARBA annotation, 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 virusUniRule annotationARBA annotation
LigandManganeseUniRule annotationARBA annotation, Metal-bindingUniRule annotationARBA annotation

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Polymerase acidic proteinUniRule annotation (EC:3.1.-.-UniRule annotation)
Alternative name(s):
RNA-directed RNA polymerase subunit P2UniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:PAUniRule annotationImported
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiInfluenza A virus (strain swl A/California/04/2009 H1N1)Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri641501 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiVirusesRiboviriaOrthornaviraeNegarnaviricotaPolyploviricotinaInsthoviricetesArticulaviralesOrthomyxoviridaeAlphainfluenzavirus
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section only exists in viral entries and indicates the host(s) either as a specific organism or taxonomic group of organisms that are susceptible to be infected by a virus.<p><a href='/help/virus_host' target='_top'>More...</a></p>Virus hostiAves [TaxID: 8782]
Homo sapiens (Human) [TaxID: 9606]
Sus scrofa (Pig) [TaxID: 9823]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000132424 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Genome

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Keywords - Cellular componenti

Host cytoplasmUniRule annotationARBA annotation, Host nucleusUniRule annotationARBA annotation

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

<p>This subsection of the <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM/processing</a> section describes post-translational modifications (PTMs). This subsection <strong>complements</strong> the information provided at the sequence level or describes modifications for which <strong>position-specific data is not yet available</strong>.<p><a href='/help/post-translational_modification' target='_top'>More...</a></p>Post-translational modificationi

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

Keywords - PTMi

PhosphoproteinUniRule annotationARBA annotation

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Influenza RNA polymerase is composed of three subunits: PB1, PB2 and PA.

UniRule annotation

Influenza RNA polymerase is composed of three subunits: PB1, PB2 and PA.

Interacts (via C-terminus) with PB1 (via N-terminus).

UniRule annotationARBA annotation

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

Database of comparative protein structure models

More...
ModBasei
Search...

SWISS-MODEL Interactive Workspace

More...
SWISS-MODEL-Workspacei
Submit a new modelling project...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a short (usually not more than 20 amino acids) conserved sequence motif of biological significance.<p><a href='/help/motif' target='_top'>More...</a></p>Motifi184 – 247Nuclear localization signal 2 (NLS2)UniRule annotationAdd BLAST64

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the influenza viruses PA family.UniRule annotation
Belongs to the influenza viruses PA-X family.ARBA annotation

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.40.91.90, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_04063, INFV_PA, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR037534, INFV_PA
IPR001009, PA/PA-X
IPR038372, PA/PA-X_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00603, Flu_PA, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

C3W5S0-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MEDFVRQCFN PMIVELAEKA MKEYGEDPKI ETNKFAAICT HLEVCFMYSD
60 70 80 90 100
FHFIDERGES IIVESGDPNA LLKHRFEIIE GRDRIMAWTV VNSICNTTGV
110 120 130 140 150
EKPKFLPDLY DYKENRFIEI GVTRREVHIY YLEKANKIKS EKTHIHIFSF
160 170 180 190 200
TGEEMATKAD YTLDEESRAR IKTRLFTIRQ EMASRSLWDS FRQSERGEET
210 220 230 240 250
IEEKFEITGT MRKLADQSLP PNFPSLENFR AYVDGFEPNG CIEGKLSQMS
260 270 280 290 300
KEVNAKIEPF LRTTPRPLRL PDGPLCHQRS KFLLMDALKL SIEDPSHEGE
310 320 330 340 350
GIPLYDAIKC MKTFFGWKEP NIVKPHEKGI NPNYLMAWKQ VLAELQDIEN
360 370 380 390 400
EEKIPRTKNM KRTSQLKWAL GENMAPEKVD FDDCKDVGDL KQYDSDEPEP
410 420 430 440 450
RSLASWVQNE 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
RTAIGQVSRP MFLYVRTNGT SKIKMKWGME MRRCLLQSLQ QIESMIEAES
610 620 630 640 650
SVKEKDMTKE FFENKSETWP IGESPRGVEE GSIGKVCRTL LAKSVFNSLY
660 670 680 690 700
ASPQLEGFSA ESRKLLLIVQ ALRDNLEPGT FDLGGLYEAI EECLINDPWV
710
LLNASWFNSF LTHALK
Length:716
Mass (Da):82,656
Last modified:June 16, 2009 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iD654A8B19844D51D
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
FJ966081 Viral cRNA Translation: ACP41104.1
FJ969515 Viral cRNA Translation: ACP44156.1
JF915188 Viral cRNA Translation: AEE69014.1

Keywords - Coding sequence diversityi

Ribosomal frameshiftingARBA annotation

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FJ966081 Viral cRNA Translation: ACP41104.1
FJ969515 Viral cRNA Translation: ACP44156.1
JF915188 Viral cRNA Translation: AEE69014.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4AVGX-ray2.20A/B/C/D1-198[»]
4AVLX-ray1.87A/B/C/D1-198[»]
4AVQX-ray2.10A/B/C/D1-198[»]
4AWFX-ray2.30A/B/C/D1-198[»]
4AWGX-ray2.60A/B/C/D1-198[»]
4AWHX-ray2.05A/B/C/D1-198[»]
4AWKX-ray1.90A1-198[»]
4AWMX-ray2.60A1-198[»]
5CCYX-ray2.10A1-50[»]
A73-196[»]
5CGVX-ray2.17A1-50[»]
A73-196[»]
5CL0X-ray2.22A1-50[»]
A73-196[»]
5CZNX-ray1.98A1-50[»]
A73-196[»]
5D2OX-ray2.15A1-50[»]
A73-196[»]
5D42X-ray2.00A1-50[»]
A73-196[»]
5D4GX-ray2.08A1-50[»]
A73-196[»]
5D8UX-ray2.29A1-50[»]
A73-196[»]
5D9JX-ray1.85A1-50[»]
A73-196[»]
5DBSX-ray2.11A1-50[»]
A73-196[»]
5DEBX-ray2.14A1-50[»]
A73-196[»]
5DESX-ray2.05A1-50[»]
A73-196[»]
5EGAX-ray2.15A1-50[»]
A73-196[»]
5VP8X-ray2.20A1-50[»]
A73-196[»]
5VPTX-ray2.10A1-50[»]
A73-196[»]
5VPXX-ray2.30A1-50[»]
A73-196[»]
5VQNX-ray2.00A1-50[»]
A73-196[»]
5VRJX-ray2.30A1-50[»]
A73-196[»]
5W3IX-ray1.95A1-50[»]
A73-196[»]
5W44X-ray2.10A1-50[»]
A73-196[»]
5W73X-ray2.20A1-50[»]
A73-196[»]
5W7UX-ray2.20A1-50[»]
A73-196[»]
5W92X-ray2.30A1-50[»]
A73-196[»]
5W9GX-ray2.10A1-50[»]
A73-196[»]
5WA6X-ray2.25A1-50[»]
A73-196[»]
5WA7X-ray2.20A1-50[»]
A73-196[»]
5WAPX-ray2.20A1-50[»]
A73-196[»]
5WB3X-ray2.20A1-50[»]
A73-196[»]
5WCSX-ray2.52A1-50[»]
A73-196[»]
5WCTX-ray2.30A1-50[»]
A73-196[»]
5WDCX-ray2.10A1-50[»]
A73-196[»]
5WDNX-ray2.10A1-50[»]
A73-196[»]
5WDWX-ray2.30A1-50[»]
A73-196[»]
5WE7X-ray2.12A1-50[»]
A73-196[»]
5WE9X-ray1.80A1-50[»]
A73-196[»]
5WEBX-ray2.25A1-50[»]
A73-196[»]
5WEFX-ray2.00A1-50[»]
A73-196[»]
5WEIX-ray2.25A1-50[»]
A73-196[»]
5WF3X-ray2.25A1-50[»]
A73-196[»]
5WFMX-ray2.25A1-50[»]
A73-196[»]
5WFWX-ray2.29A1-50[»]
A73-196[»]
5WFZX-ray2.35A1-50[»]
A73-196[»]
5WG9X-ray2.30A1-50[»]
A73-196[»]
6DCYX-ray2.08A1-198[»]
6DCZX-ray2.89A1-198[»]
6DZQX-ray2.25A1-198[»]
6E0QX-ray2.35A1-198[»]
6E3MX-ray2.65A1-198[»]
6E3NX-ray3.19A1-198[»]
6E3OX-ray3.19A1-198[»]
6E3PX-ray2.80A1-198[»]
6E4CX-ray2.35A1-198[»]
6E6VX-ray2.25A1-198[»]
6E6WX-ray2.35A1-198[»]
6E6XX-ray2.50A1-198[»]
6FS6X-ray2.29A/B/C/D/E/F1-51[»]
A/B/C/D/E/F65-198[»]
6FS7X-ray1.96A/B/C/D/E/F1-51[»]
A/B/C/D/E/F65-198[»]
7K0WX-ray2.09A1-50[»]
A73-196[»]
ModBaseiSearch...
SWISS-MODEL-WorkspaceiSubmit a new modelling project...
PDBe-KBiSearch...

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

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiC3W5S0_I09A0
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: C3W5S0
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/TrEMBL: June 16, 2009
Last sequence update: June 16, 2009
Last modified: June 2, 2021
This is version 84 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiUnreviewed (UniProtKB/TrEMBL)

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structureCombined sources
UniProt is an ELIXIR core data resource
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