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UniProtKB - P52874 (CLP1_CAEEL)

Entry version 134 (02 Dec 2020)
Sequence version 2 (15 Dec 1998)
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Protein

Protein clpf-1

Gene

clpf-1

Organism
Caenorhabditis elegans
Status
Reviewed-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

Required for endonucleolytic cleavage during polyadenylation-dependent pre-mRNA 3'-end formation.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 describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei16ATPUniRule annotation1
Binding sitei56ATP; via carbonyl oxygenUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi124 – 129ATPUniRule annotation6

<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

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<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

Biological processmRNA processing
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...Reactomei		R-CEL-72163, mRNA Splicing - Major Pathway
R-CEL-72187, mRNA 3'-end processing
R-CEL-73856, RNA Polymerase II Transcription Termination
R-CEL-77595, Processing of Intronless Pre-mRNAs

<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:
Protein clpf-1UniRule 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:clpf-1UniRule annotation
ORF Names:F59A2.4
<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>OrganismiCaenorhabditis elegans
<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 identifieri6239 [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 lineageiEukaryota › Metazoa › Ecdysozoa › Nematoda › Chromadorea › Rhabditida › Rhabditina › Rhabditomorpha › Rhabditoidea › Rhabditidae › Peloderinae › Caenorhabditis
<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
  • UP000001940 <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: Chromosome III

Organism-specific databases

WormBase

More...WormBasei		F59A2.4a ; CE17941 ; WBGene00010304 ; clpf-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 & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

<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 or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00000653781 – 428Protein clpf-1Add BLAST428

Proteomic databases

Encyclopedia of Proteome Dynamics

More...EPDi		P52874

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

More...PaxDbi		P52874

PeptideAtlas

More...PeptideAtlasi		P52874

<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		WBGene00010304, Expressed in multi-cellular organism and 5 other tissues

ExpressionAtlas, Differential and Baseline Expression

More...ExpressionAtlasi		P52874, baseline and differential

<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		40684, 3 interactors

Database of interacting proteins

More...DIPi		DIP-27405N

Protein interaction database and analysis system

More...IntActi		P52874, 3 interactors

STRING: functional protein association networks

More...STRINGi		6239.F59A2.4a

<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

Secondary structure

1428
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

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

More...SMRi		P52874

Database of comparative protein structure models

More...ModBasei		Search...

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

<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 Clp1 family. Clp1 subfamily.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG2749, Eukaryota

Ensembl GeneTree

More...GeneTreei		ENSGT00940000153668

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_018195_1_0_1

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P52874

Identification of Orthologs from Complete Genome Data

More...OMAi		KVAIFTY

Database of Orthologous Groups

More...OrthoDBi		814241at2759

Database for complete collections of gene phylogenies

More...PhylomeDBi		P52874

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		2.60.120.1030, 1 hit
3.30.70.2410, 1 hit

HAMAP database of protein families

More...HAMAPi		MF_03035, Clp1, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR028606, Clp1
IPR010655, Clp1_C
IPR038238, Clp1_C_sf
IPR032324, Clp1_N
IPR038239, Clp1_N_sf
IPR032319, CLP1_P
IPR027417, P-loop_NTPase

Pfam protein domain database

More...Pfami		View protein in Pfam
PF06807, Clp1, 1 hit
PF16573, CLP1_N, 1 hit
PF16575, CLP1_P, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF52540, SSF52540, 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>Sequence (1+)i

<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.

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

P52874-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSEENVQEFV LKEDCELRFA AGDDSDVCLE LVKGYAEIFG TELLLNKKYT 
        60         70         80         90        100
FPAKSRVAAF TWKGATIELV GTTESAYVAE STPMVIYLNI HAAMEEVRKK 
       110        120        130        140        150
REEQAAGNSN KAKGPRLLLV GPTDVGKTTV SRILCNYSVR QGRTPIFVEL 
       160        170        180        190        200
DVGQNSVSVP GTVAAVLVQK TADVIDGFER NQPIVFNFGH TSPSANLSLY 
       210        220        230        240        250
EALFKEMATT LNAQIQENDE AKIGGMIINT CGWVDGEGYK CIVKAASAFE 
       260        270        280        290        300
VDVVIVLDHE RLYSDLSKEL PEFVRLTHVP KSGGVEQRTG QIRSKMRGEN 
       310        320        330        340        350
VHRYFYGTRA NNLYPFTFDV SFDDVTLCKI GAEQLPDSCL PFGMEVENHE 
       360        370        380        390        400
TKLVIMEPSA DIKHHLFAFS RSTKADENVL KSPVFGFCLV TEVDLEKRTM 
       410        420 
SILCPQRTIP SKVLVFSDIT HLDDQIKR
Length:428
Mass (Da):47,598
Last modified:December 15, 1998 - 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:i9E6094897876AA92
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
Q2EEP3Q2EEP3_CAEEL
Clp1 domain-containing protein
clpf-1 CELE_F59A2.4, F59A2.4
85Annotation 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>

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
Z34801 Genomic DNA Translation: CAA84329.1

Protein sequence database of the Protein Information Resource

More...PIRi		T22973

NCBI Reference Sequences

More...RefSeqi		NP_001040858.1, NM_001047393.2

Genome annotation databases

Ensembl metazoan genome annotation project

More...EnsemblMetazoai		F59A2.4a.1; F59A2.4a.1; WBGene00010304

Database of genes from NCBI RefSeq genomes

More...GeneIDi		175442

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		cel:CELE_F59A2.4

UCSC genome browser

More...UCSCi		F59A2.4a, 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
Z34801 Genomic DNA Translation: CAA84329.1
PIRiT22973
RefSeqiNP_001040858.1, NM_001047393.2

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
4OHVX-ray2.30A1-428[»]
4OHWX-ray2.30A1-428[»]
4OHXX-ray1.98A1-428[»]
4OHYX-ray2.00A1-428[»]
4OHZX-ray2.40A1-428[»]
4OI0X-ray2.20A1-428[»]
4OI1X-ray2.30A1-428[»]
4OI2X-ray2.60A1-428[»]
SMRiP52874
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGRIDi40684, 3 interactors
DIPiDIP-27405N
IntActiP52874, 3 interactors
STRINGi6239.F59A2.4a

Proteomic databases

EPDiP52874
PaxDbiP52874
PeptideAtlasiP52874

Genome annotation databases

EnsemblMetazoaiF59A2.4a.1; F59A2.4a.1; WBGene00010304
GeneIDi175442
KEGGicel:CELE_F59A2.4
UCSCiF59A2.4a, c. elegans

Organism-specific databases

Comparative Toxicogenomics Database

More...CTDi		175442
WormBaseiF59A2.4a ; CE17941 ; WBGene00010304 ; clpf-1

Phylogenomic databases

eggNOGiKOG2749, Eukaryota
GeneTreeiENSGT00940000153668
HOGENOMiCLU_018195_1_0_1
InParanoidiP52874
OMAiKVAIFTY
OrthoDBi814241at2759
PhylomeDBiP52874

Enzyme and pathway databases

ReactomeiR-CEL-72163, mRNA Splicing - Major Pathway
R-CEL-72187, mRNA 3'-end processing
R-CEL-73856, RNA Polymerase II Transcription Termination
R-CEL-77595, Processing of Intronless Pre-mRNAs

Miscellaneous databases

Protein Ontology

More...PROi		PR:P52874

Gene expression databases

BgeeiWBGene00010304, Expressed in multi-cellular organism and 5 other tissues
ExpressionAtlasiP52874, baseline and differential

Family and domain databases

Gene3Di2.60.120.1030, 1 hit
3.30.70.2410, 1 hit
HAMAPiMF_03035, Clp1, 1 hit
InterProiView protein in InterPro
IPR028606, Clp1
IPR010655, Clp1_C
IPR038238, Clp1_C_sf
IPR032324, Clp1_N
IPR038239, Clp1_N_sf
IPR032319, CLP1_P
IPR027417, P-loop_NTPase
PfamiView protein in Pfam
PF06807, Clp1, 1 hit
PF16573, CLP1_N, 1 hit
PF16575, CLP1_P, 1 hit
SUPFAMiSSF52540, SSF52540, 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 nameiCLP1_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: P52874
<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/Swiss-Prot: October 1, 1996
Last sequence update: December 15, 1998
Last modified: December 2, 2020
This is version 134 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

3D-structure, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
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