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Entry version 19 (13 Feb 2019)
Sequence version 1 (30 Nov 2016)
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Protein
Submitted name:

UPF2, regulator of nonsense mediated mRNA decay

Gene

UPF2

Organism
Gallus gallus (Chicken)
Status
Unreviewed-Annotation score:

Annotation score:1 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>
-Protein predictedi <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

<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

  • nuclear-transcribed mRNA catabolic process, nonsense-mediated decay Source: GO_Central

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-GGA-975957 Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)

<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_and_taxonomy_section">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
Submitted name:
UPF2, regulator of nonsense mediated mRNA decayImported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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:UPF2Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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>OrganismiGallus gallus (Chicken)Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 identifieri9031 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiArchelosauriaArchosauriaDinosauriaSaurischiaTheropodaCoelurosauriaAvesNeognathaeGalloanseraeGalliformesPhasianidaePhasianinaeGallus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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
  • UP000000539 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">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: Chromosome 1

<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

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
A0A1D5P1W3 baseline and differential

<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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini167 – 363MIF4GInterPro annotationAdd BLAST197
Domaini590 – 779MIF4GInterPro annotationAdd BLAST190
Domaini794 – 1007MIF4GInterPro annotationAdd BLAST214

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and domains’ section denotes the positions of regions of coiled coil within the protein.<p><a href='/help/coiled' target='_top'>More...</a></p>Coiled coili4 – 24Sequence analysisAdd BLAST21
Coiled coili57 – 133Sequence analysisAdd BLAST77
Coiled coili1007 – 1027Sequence analysisAdd BLAST21

<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>Keywords - Domaini

Coiled coilSequence analysis

Phylogenomic databases

Ensembl GeneTree

More...
GeneTreei
ENSGT00530000064318

KEGG Orthology (KO)

More...
KOi
K14327

Identification of Orthologs from Complete Genome Data

More...
OMAi
LVFFQHY

Database of Orthologous Groups

More...
OrthoDBi
653534at2759

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.25.40.180, 3 hits

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR016024 ARM-type_fold
IPR016021 MIF4-like_sf
IPR003890 MIF4G-like_typ-3
IPR039762 Nmd2/UPF2
IPR007193 Upf2/Nmd2_C

The PANTHER Classification System

More...
PANTHERi
PTHR12839 PTHR12839, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF02854 MIF4G, 3 hits
PF04050 Upf2, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00543 MIF4G, 3 hits

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF48371 SSF48371, 3 hits

<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_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>.<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequence (1+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">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.

This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All

A0A1D5P1W3-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MPAERKKSAN MDEKESLLNN KEKEFVERRP VSTREKPKDD VKVGVKRETV
60 70 80 90 100
KVPEDKKKKL DEDKRKKEDK ERKKKEEDKV KAEEEQKKKE EEEKKKHEEE
110 120 130 140 150
EKKKQEEEVK RQQEEAAAQL KEKEEAHQLH QEAWERHQAR KELRSKNQNA
160 170 180 190 200
PDNRPEENFF SRLDSSLKKN TAFVKKLKTI TEQQRDSLSH DFNSLNLSKY
210 220 230 240 250
IAEAVASIVE AKLKISDVNC AVHLCSLFHQ RYADFAPSLL QAWKKHFEAR
260 270 280 290 300
KEEKTPNITK LRTDLRFIAE LTIVGIFTDK EGLSLIYEQL KNIINADRES
310 320 330 340 350
HTHVSVVISF CRHCGDDIAG LVPRKVKTVA EKFNLSFPPS EIISPEKQQP
360 370 380 390 400
FQNLLKEYFT SLTKHLKRDH RELQNIERQN RRILHSKGEL SEDRHKQYEE
410 420 430 440 450
FAMSYQKLLA NSQSLADILD ENMPDLPQDK PTPEEHGPGI DIFTPGKPGE
460 470 480 490 500
YDLEGGIWED EDARNFYENL IDLKAFVPAI LFKDNEKCSQ SKDASKDESR
510 520 530 540 550
DSKDAKDNKE AAPGSEDLEL ELENLDINDD PLELDCGDEA EDLTKKLLDE
560 570 580 590 600
QGKREGADST GADSSDGKQA ERKQEDEEAS TGSHLKLIVD AFLQQLPNCV
610 620 630 640 650
NRDLIDKAAM DFCMNMNTKA NRRKLVRALF IVPRQRLDLL PFYARLVATL
660 670 680 690 700
HPCMSDVAED LCSMLKGDFR FHVRKKDQIN IETKNKTVRF IGELTKFKMF
710 720 730 740 750
SKNDTLHCLK MLLSDFSHHH IEMACTLLET CGRFLFRSPE SHLRTSVLLE
760 770 780 790 800
QMMRKKQAMH LDARYVTMVE NAYYYCNPPP AEKTVKKKRP PLQEYIRKLL
810 820 830 840 850
YKDLSKVTTE KVLRQMRKLP WQDTEVKDYV ICCMINIWNV KYNSIHCVAN
860 870 880 890 900
LLAGLVLYQE DVGIHVVDGV LEDIRLGMEV NQPKFNQRRI SSAKFLGELY
910 920 930 940 950
NYRMVESAVI FRTLYSFTSF GVNPDGSPSP LDPPEHLFRI RLVCTILDTC
960 970 980 990 1000
GQYFDRGSSK RKLDCFLVYF QRYVWWKKSL DVWTKDHPFP IDIDYMISDT
1010 1020 1030 1040 1050
LELLRPKIKL CSSLEEAIRQ VQDLEREFLI KLGLVNDKDS KDTITEGENL
1060 1070 1080 1090 1100
EEDEEEEEGG AETEEQSGNE SEVNEPEEEE GSDNEEEEGE EEEEENTDYL
1110 1120 1130 1140 1150
TDSNKENETD EENTEVMIKG GGLKHVPCAE DEDFIQALDK MMLENLQQRS
1160 1170 1180 1190 1200
GESVKVHQLD VAIPLHLKSQ LKKGPPLGSG EGESESGDTM PFVMLTRKGN
1210 1220 1230 1240 1250
KQQFKILNVP MSSQLAANHW NQQQAEQEER MRMKKLTLDI NERQEQEDYQ
1260 1270 1280 1290
EMLQSLAQRP APANTNRERR PRYQHPKGAP NADLIFKTGG RRR
Length:1,293
Mass (Da):149,843
Last modified:November 30, 2016 - 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:i8A3CAD0B30802568
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A1D5PHS9A0A1D5PHS9_CHICK
UPF2, regulator of nonsense mediate...
UPF2
1,272Annotation score:

Annotation score:2 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>

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
AADN04000257 Genomic DNA No translation available.

NCBI Reference Sequences

More...
RefSeqi
XP_015153052.1, XM_015297566.1
XP_015153086.1, XM_015297600.1

UniGene gene-oriented nucleotide sequence clusters

More...
UniGenei
Gga.23217
Gga.48857

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSGALT00000067264; ENSGALP00000046655; ENSGALG00000033772

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
419100

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
gga:419100

<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
AADN04000257 Genomic DNA No translation available.
RefSeqiXP_015153052.1, XM_015297566.1
XP_015153086.1, XM_015297600.1
UniGeneiGga.23217
Gga.48857

3D structure databases

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSGALT00000067264; ENSGALP00000046655; ENSGALG00000033772
GeneIDi419100
KEGGigga:419100

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
26019

Phylogenomic databases

GeneTreeiENSGT00530000064318
KOiK14327
OMAiLVFFQHY
OrthoDBi653534at2759

Enzyme and pathway databases

ReactomeiR-GGA-975957 Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)

Gene expression databases

ExpressionAtlasiA0A1D5P1W3 baseline and differential

Family and domain databases

Gene3Di1.25.40.180, 3 hits
InterProiView protein in InterPro
IPR016024 ARM-type_fold
IPR016021 MIF4-like_sf
IPR003890 MIF4G-like_typ-3
IPR039762 Nmd2/UPF2
IPR007193 Upf2/Nmd2_C
PANTHERiPTHR12839 PTHR12839, 1 hit
PfamiView protein in Pfam
PF02854 MIF4G, 3 hits
PF04050 Upf2, 1 hit
SMARTiView protein in SMART
SM00543 MIF4G, 3 hits
SUPFAMiSSF48371 SSF48371, 3 hits

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
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 nameiA0A1D5P1W3_CHICK
<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: A0A1D5P1W3
<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_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/TrEMBL: November 30, 2016
Last sequence update: November 30, 2016
Last modified: February 13, 2019
This is version 19 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

Complete proteome, Reference proteomeImported
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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