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Entry version 151 (16 Oct 2019)
Sequence version 3 (05 Sep 2006)
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Protein

Vacuolar protein sorting-associated protein 41 homolog

Gene

VPS41

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score:

Annotation score:4 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 vacuolar assembly and vacuolar traffic.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 - 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

Biological processProtein transport, Transport

<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:
Vacuolar protein sorting-associated protein 41 homolog
<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:VPS41
Ordered Locus Names:At1g08190
ORF Names:T23G18.5
<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>OrganismiArabidopsis thaliana (Mouse-ear cress)
<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 identifieri3702 [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 lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliopsidaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
<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
  • UP000006548 <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

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT1G08190

The Arabidopsis Information Resource

More...
TAIRi
locus:2200008 AT1G08190

<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 Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

<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_00002128251 – 980Vacuolar protein sorting-associated protein 41 homologAdd BLAST980

Proteomic databases

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

More...
PaxDbi
P93043

PRoteomics IDEntifications database

More...
PRIDEi
P93043

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
P93043

<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
P93043 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
P93043 AT

<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_section">'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_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Component of the homotypic fusion and vacuole protein sorting (HOPS) complex composed of the class C Vps core proteins VPS11, VCL1, VPS18 and VPS33, which in HOPS further associates with VPS39 and VPS41.

1 Publication

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
3702.AT1G08190.1

<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 ‘Family and Domains’ section indicates the positions and types of repeated sequence motifs or repeated domains within the protein.<p><a href='/help/repeat' target='_top'>More...</a></p>Repeati57 – 95WD 1Add BLAST39
Repeati96 – 135WD 2Add BLAST40
Repeati185 – 221WD 3Add BLAST37
Repeati613 – 769CHCRAdd BLAST157

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 biasi15 – 33Poly-GluAdd BLAST19
Compositional biasi945 – 954Poly-Glu10
Compositional biasi974 – 979Poly-Ala6

<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 VPS41 family.Curated

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG2066 Eukaryota
ENOG410XQBC LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000247002

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P93043

KEGG Orthology (KO)

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KOi
K20184

Identification of Orthologs from Complete Genome Data

More...
OMAi
RCSLGLI

Database of Orthologous Groups

More...
OrthoDBi
722805at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
P93043

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.25.40.10, 1 hit
2.130.10.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR000547 Clathrin_H-chain/VPS_repeat
IPR011990 TPR-like_helical_dom_sf
IPR016902 VPS41
IPR015943 WD40/YVTN_repeat-like_dom_sf
IPR001680 WD40_repeat
IPR036322 WD40_repeat_dom_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00637 Clathrin, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF028921 VPS41, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00299 CLH, 1 hit
SM00320 WD40, 2 hits

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF50978 SSF50978, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50236 CHCR, 1 hit
PS50082 WD_REPEATS_2, 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.

P93043-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAAVPPENGV DGDDEREEEE EDEEEEEEEE EEENGDEAEE EPRLKYQRMG
60 70 80 90 100
GNVPALLSND AASCIAVAAR MIALGTHDGT VRILDLLGNQ VKEFRAHTAP
110 120 130 140 150
VNDINFDTEG EYIGSCSDDG SVVINSLFTD DEKMKFDYHR PMKAISLDPD
160 170 180 190 200
YTKKQSKRFV AGGLAGHLYM NSKKWFGNKD QVLHSGEGPI HSVKWRGSLI
210 220 230 240 250
AWANDVGVKV YDTAKDQRVT FIEKPRGSPR PEALLPHLVW QDDTLLVIGW
260 270 280 290 300
GTSVKIASIK SDQQQTGTFR QIQMSSLTQV DIVASFQTSY YISGIAPFGD
310 320 330 340 350
SLVILAYIPI EGDGEKEFSS TTTLSRQGNA QRPEIRIVSW NNDELTMDAL
360 370 380 390 400
PVHGFEHYKA KDYSLAHAPF PGSSYAGGQW AAGDEPLYYI VSPKDVVIAK
410 420 430 440 450
PRDAEDHINW LLQHGFHEKA LAAVEASEGR TELIDKVGAG YLDHLIVERK
460 470 480 490 500
YAEAASLCPK LLRGSASAWE RWVFHFAQLR QLPVLVPYMP TDNPRLKDTV
510 520 530 540 550
YEVALVALAT NPSYHKELLS AVKSWPRSVY SALTVISAIE PQLNTSSMTD
560 570 580 590 600
ALKEALAELY VIDGQYQKAF SLYADLLKPE VFDFIEKYSL HEAIRGKVVQ
610 620 630 640 650
LMLLDCKRAT VLFIQNRDLI PPSEVVPQLL KAGKNPQVLK AGKKCDSRYY
660 670 680 690 700
LYLYLHALFE VSHDTGKDFH DMQVELYAEY DTKMLLPFLR SSQHYKLEKA
710 720 730 740 750
YELCVKKDFL REQVFVLGRM GNAKQALAVI INKLGDIEEA VEFVSMQHDD
760 770 780 790 800
DLWEELIKQC LNKPEMVGLL LEHTVGNLDP LYIVNMVPNG LEIPRLRDRL
810 820 830 840 850
VKIVTDYRTE TSLRHGCNDI LKTDIVNLLV KCFNEARRGV CLSHEDDDSR
860 870 880 890 900
AKREDNNRSS FSQRMVVDKS LSIKMTEVKS KTRGDTRCCM CFDPVSIRGD
910 920 930 940 950
TVVVFFCCHA YHETCLMDAA FSNNNHKTTK GSSGYEYSYD NGVDEEEEDE
960 970 980
EEDEDGDGDR PGRSRLRCIL CTTAAAASAR
Length:980
Mass (Da):110,279
Last modified:September 5, 2006 - v3
<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:iE9A41687FC84FB58
GO

<p>This subsection of the ‘Sequence’ section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence AAF18239 differs from that shown. Reason: Erroneous gene model prediction.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti648R → G in AAB60858 (PubMed:9159129).Curated1
Sequence conflicti948E → EE in AAB60858 (PubMed:9159129).Curated1

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
AC011438 Genomic DNA Translation: AAF18239.1 Sequence problems.
CP002684 Genomic DNA Translation: AEE28259.1
U86663 Genomic DNA Translation: AAB60858.1

NCBI Reference Sequences

More...
RefSeqi
NP_172297.2, NM_100693.4

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT1G08190.1; AT1G08190.1; AT1G08190

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
837340

Gramene; a comparative resource for plants

More...
Gramenei
AT1G08190.1; AT1G08190.1; AT1G08190

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT1G08190

<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
AC011438 Genomic DNA Translation: AAF18239.1 Sequence problems.
CP002684 Genomic DNA Translation: AEE28259.1
U86663 Genomic DNA Translation: AAB60858.1
RefSeqiNP_172297.2, NM_100693.4

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-protein interaction databases

STRINGi3702.AT1G08190.1

PTM databases

iPTMnetiP93043

Proteomic databases

PaxDbiP93043
PRIDEiP93043

Genome annotation databases

EnsemblPlantsiAT1G08190.1; AT1G08190.1; AT1G08190
GeneIDi837340
GrameneiAT1G08190.1; AT1G08190.1; AT1G08190
KEGGiath:AT1G08190

Organism-specific databases

AraportiAT1G08190
TAIRilocus:2200008 AT1G08190

Phylogenomic databases

eggNOGiKOG2066 Eukaryota
ENOG410XQBC LUCA
HOGENOMiHOG000247002
InParanoidiP93043
KOiK20184
OMAiRCSLGLI
OrthoDBi722805at2759
PhylomeDBiP93043

Miscellaneous databases

Protein Ontology

More...
PROi
PR:P93043

Gene expression databases

ExpressionAtlasiP93043 baseline and differential
GenevisibleiP93043 AT

Family and domain databases

Gene3Di1.25.40.10, 1 hit
2.130.10.10, 1 hit
InterProiView protein in InterPro
IPR000547 Clathrin_H-chain/VPS_repeat
IPR011990 TPR-like_helical_dom_sf
IPR016902 VPS41
IPR015943 WD40/YVTN_repeat-like_dom_sf
IPR001680 WD40_repeat
IPR036322 WD40_repeat_dom_sf
PfamiView protein in Pfam
PF00637 Clathrin, 1 hit
PIRSFiPIRSF028921 VPS41, 1 hit
SMARTiView protein in SMART
SM00299 CLH, 1 hit
SM00320 WD40, 2 hits
SUPFAMiSSF50978 SSF50978, 1 hit
PROSITEiView protein in PROSITE
PS50236 CHCR, 1 hit
PS50082 WD_REPEATS_2, 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 nameiVPS41_ARATH
<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: P93043
Secondary accession number(s): Q9SGE1
<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: November 1, 1997
Last sequence update: September 5, 2006
Last modified: October 16, 2019
This is version 151 of the entry and version 3 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 programPlant Protein Annotation Program

<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 proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
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