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Entry version 103 (11 Dec 2019)
Sequence version 2 (01 May 1999)
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Protein

Protein PAT1 homolog 1

Gene

patr-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation 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>
-Protein inferred from homologyi <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

RNA-binding protein involved in deadenylation-dependent decapping of mRNAs, leading to the degradation of mRNAs. Acts as a scaffold protein that connects deadenylation and decapping machinery (By similarity).By similarity

<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

  • RNA binding Source: GO_Central

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 functionRNA-binding

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-CEL-430039 mRNA decay by 5' to 3' exoribonuclease

<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
Recommended name:
Protein PAT1 homolog 1
<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:patr-1
ORF Names:F43G6.9
<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>OrganismiCaenorhabditis elegans
<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 identifieri6239 [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 lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditinaRhabditomorphaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
<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
  • UP000001940 <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 II

Organism-specific databases

WormBase

More...
WormBasei
F43G6.9 ; CE18675 ; WBGene00009661 ; patr-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

Keywords - Cellular componenti

Cytoplasm

<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

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004045821 – 833Protein PAT1 homolog 1Add BLAST833

Proteomic databases

Encyclopedia of Proteome Dynamics

More...
EPDi
Q20374

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q20374

PeptideAtlas

More...
PeptideAtlasi
Q20374

PRoteomics IDEntifications database

More...
PRIDEi
Q20374

<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

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
WBGene00009661 Expressed in 5 organ(s), highest expression level in multi-cellular organism

<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

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
40112, 5 interactors

STRING: functional protein association networks

More...
STRINGi
6239.F43G6.9

<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

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
Q20374

Database of comparative protein structure models

More...
ModBasei
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

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi289 – 371Pro-richAdd BLAST83

<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 PAT1 family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
ENOG410J241 Eukaryota
ENOG4111D7W LUCA

Ensembl GeneTree

More...
GeneTreei
ENSGT00520000055649

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000016744

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q20374

KEGG Orthology (KO)

More...
KOi
K12617

Identification of Orthologs from Complete Genome Data

More...
OMAi
STHNPRH

Database of Orthologous Groups

More...
OrthoDBi
415246at2759

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR039900 Pat1-like

The PANTHER Classification System

More...
PANTHERi
PTHR21551 PTHR21551, 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_length">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_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.

Q20374-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MEEVKKYGKT LEEIEGGLMF DDFPESLVDS DEDHNIFDDE FDAANDETFG
60 70 80 90 100
GGLDNIGENA ELENYATQTA KLRFDDPVWQ KPSSSDHVAP SASEIPIPFP
110 120 130 140 150
NFGNGDASDS FKSSFEAESP FLKKSIWGNG TDGAYNIWGT NFGISSVPAA
160 170 180 190 200
PTLDLDFGAL LPTPTIQATK EVKSSQIPSM PSSALTLEDC ERMQMGNKPD
210 220 230 240 250
SLVDAFKDLQ LGSTPVQPQS AQFSKHPLEA RIAAPGTPAT ASSQALPTLP
260 270 280 290 300
TAALSLEELE LQIMKEAQIL KGRQQVPSDM REDNKFSHPP PGFNQNVQPR
310 320 330 340 350
MDPSLSPGGM HGMPPSMGTS MPHMGPMMPP QNMQLPRLPP LNPQFLPLIP
360 370 380 390 400
VWFNAIINNI QLPMGVPPPP PFLFQLLNHY RNPQLVHAMI MQSSIPPNIR
410 420 430 440 450
QNGPQFSHPS GPHSPGNRVQ RKHSGMPSTR TIYDLALDSF AGYMSYKERE
460 470 480 490 500
WLIRIQFIQC KGSGDPQVDD YYYVTWRDKQ IANGWTAETK LEEATKEKKE
510 520 530 540 550
KSSESQKDYL ERISRMNYRE MQKERARERD KERQRERQER IDRGEDKKLR
560 570 580 590 600
QTLSDKFATS LGLPSKSSTH NPRHVLDMKA QVESVDNQTK KLSDEERKIA
610 620 630 640 650
VAKKLRTMLL RLEGALNILM EVDELRRSSL PEKSQFKDLS SDEKDQEVEK
660 670 680 690 700
RTTVIINELM GDDLSKLMQM SKGRAVITRT LKVVEPRDQA RIILALMTAG
710 720 730 740 750
GLVSKKMYGE IVLDILPVVY QKVSNLHPDQ FKYLVGALNL DTLKRQLLDS
760 770 780 790 800
NMFIRDMMMT LFFVSVKNNQ QLVEWAKATK FSSLKMPSSA PLSIWRKALS
810 820 830
VISDSEIKEF ADDIKYSGIV DCHDVAQLIE QSL
Length:833
Mass (Da):93,672
Last modified:May 1, 1999 - v2
<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:i5047A926A94E2EE5
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
Z50070, Z83108 Genomic DNA Translation: CAA90402.1

Protein sequence database of the Protein Information Resource

More...
PIRi
T22139

NCBI Reference Sequences

More...
RefSeqi
NP_496514.1, NM_064113.5

Genome annotation databases

Ensembl metazoan genome annotation project

More...
EnsemblMetazoai
F43G6.9.1; F43G6.9.1; WBGene00009661

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
174808

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
cel:CELE_F43G6.9

UCSC genome browser

More...
UCSCi
F43G6.9.1 c. elegans

<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
Z50070, Z83108 Genomic DNA Translation: CAA90402.1
PIRiT22139
RefSeqiNP_496514.1, NM_064113.5

3D structure databases

SMRiQ20374
ModBaseiSearch...

Protein-protein interaction databases

BioGridi40112, 5 interactors
STRINGi6239.F43G6.9

Proteomic databases

EPDiQ20374
PaxDbiQ20374
PeptideAtlasiQ20374
PRIDEiQ20374

Genome annotation databases

EnsemblMetazoaiF43G6.9.1; F43G6.9.1; WBGene00009661
GeneIDi174808
KEGGicel:CELE_F43G6.9
UCSCiF43G6.9.1 c. elegans

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
42058
WormBaseiF43G6.9 ; CE18675 ; WBGene00009661 ; patr-1

Phylogenomic databases

eggNOGiENOG410J241 Eukaryota
ENOG4111D7W LUCA
GeneTreeiENSGT00520000055649
HOGENOMiHOG000016744
InParanoidiQ20374
KOiK12617
OMAiSTHNPRH
OrthoDBi415246at2759

Enzyme and pathway databases

ReactomeiR-CEL-430039 mRNA decay by 5' to 3' exoribonuclease

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q20374

Gene expression databases

BgeeiWBGene00009661 Expressed in 5 organ(s), highest expression level in multi-cellular organism

Family and domain databases

InterProiView protein in InterPro
IPR039900 Pat1-like
PANTHERiPTHR21551 PTHR21551, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

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 nameiPATR1_CAEEL
<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: Q20374
<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/Swiss-Prot: February 8, 2011
Last sequence update: May 1, 1999
Last modified: December 11, 2019
This is version 103 of the entry and version 2 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 statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

<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

Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
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