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Protein

Vacuolar protein sorting-associated protein 41 homolog

Gene

Vps41

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Plays a role in vesicle-mediated protein trafficking to lysosomal compartments including the endocytic membrane transport and autophagic pathways. Believed to act in part as a core component of the putative HOPS endosomal tethering complexe is proposed to be involved in the Rab5-to-Rab7 endosome conversion probably implicating MON1A/B, and via binding SNAREs and SNARE complexes to mediate tethering and docking events during SNARE-mediated membrane fusion. The HOPS complex is proposed to be recruited to Rab7 on the late endosomal membrane and to regulate late endocytic, phagocytic and autophagic traffic towards lysosomes. Involved in homotypic vesicle fusions between late endosomes and in heterotypic fusions between late endosomes and lysosomes implicated in degradation of endocytosed cargo. Required for fusion of autophagosomes with lysosomes. May link the HOPS complex to endosomal Rab7 via its association with RILP and to lysosomal membranes via its association with ARL8B, suggesting that these interactions may bring the compartments to close proximity for fusion. Involved in the direct trans-Golgi network to late endosomes transport of lysosomal membrane proteins independently of HOPS. Involved in sorting to the regulated secretory pathway presumably implicating the AP-3 adaptor complex. May play a role in HOPS-independent function in the regulated secretory pathway (By similarity).By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri790 – 83849RING-type; atypicalPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  • identical protein binding Source: MGI
  • microtubule binding Source: MGI
  • zinc ion binding Source: InterPro

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Autophagy, Protein transport, Transport

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Vacuolar protein sorting-associated protein 41 homolog
Alternative name(s):
VAM2 homolog
Short name:
mVAM2
Gene namesi
Name:Vps41
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 13

Organism-specific databases

MGIiMGI:1929215. Vps41.

Subcellular locationi

  • Endosome membrane By similarity
  • Late endosome By similarity
  • Lysosome By similarity
  • Golgi apparatustrans-Golgi network By similarity
  • Early endosome By similarity
  • Cytoplasmic vesicleclathrin-coated vesicle By similarity

GO - Cellular componenti

  • AP-3 adaptor complex Source: Ensembl
  • clathrin-coated vesicle Source: MGI
  • clathrin complex Source: Ensembl
  • cytosol Source: MGI
  • early endosome Source: MGI
  • endosome membrane Source: MGI
  • Golgi-associated vesicle Source: MGI
  • HOPS complex Source: MGI
  • late endosome Source: MGI
  • late endosome membrane Source: MGI
  • lysosomal membrane Source: MGI
  • membrane Source: MGI
  • microtubule cytoskeleton Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasmic vesicle, Endosome, Golgi apparatus, Lysosome, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 853853Vacuolar protein sorting-associated protein 41 homologPRO_0000253020Add
BLAST

Proteomic databases

EPDiQ5KU39.
MaxQBiQ5KU39.
PaxDbiQ5KU39.
PRIDEiQ5KU39.

PTM databases

iPTMnetiQ5KU39.
PhosphoSiteiQ5KU39.

Expressioni

Gene expression databases

BgeeiQ5KU39.
CleanExiMM_VPS41.
GenevisibleiQ5KU39. MM.

Interactioni

Subunit structurei

Component of the putative homotypic fusion and vacuole protein sorting (HOPS) complex; the core of which composed of the class C Vps proteins VPS11, VPS16, VPS18 and VPS33A, is associated with VPS39 and VPS41. Interacts with RILP, MON1B. Interacts with ARL8B (GTP-bound form); involved in recruitment to lysosomes and probably hierarchial assembly of the HOPS complex at lysosomal membranes. In vitro can self-assemble into a lattice. Associates with adaptor protein complex 3 (AP-3) and clathrin:AP-3 complexes (By similarity).By similarity

GO - Molecular functioni

  • identical protein binding Source: MGI
  • microtubule binding Source: MGI

Protein-protein interaction databases

BioGridi229988. 10 interactions.
IntActiQ5KU39. 10 interactions.
MINTiMINT-4116535.
STRINGi10090.ENSMUSP00000072729.

Structurei

3D structure databases

ProteinModelPortaliQ5KU39.
SMRiQ5KU39. Positions 172-246, 519-553, 658-700.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati567 – 711145CHCRAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 539539Interaction with ARL8BBy similarityAdd
BLAST

Sequence similaritiesi

Belongs to the VPS41 family.Curated
Contains 1 CHCR (clathrin heavy-chain) repeat.PROSITE-ProRule annotation
Contains 1 RING-type zinc finger.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri790 – 83849RING-type; atypicalPROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG2066. Eukaryota.
ENOG410XQBC. LUCA.
GeneTreeiENSGT00390000000481.
HOVERGENiHBG056494.
InParanoidiQ5KU39.
OMAiICSAKHR.
OrthoDBiEOG7DVD9K.
PhylomeDBiQ5KU39.
TreeFamiTF300451.

Family and domain databases

Gene3Di1.25.40.10. 1 hit.
2.130.10.10. 1 hit.
3.30.40.10. 1 hit.
InterProiIPR000547. Clathrin_H-chain/VPS_repeat.
IPR011990. TPR-like_helical_dom.
IPR016902. VPS41.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR017986. WD40_repeat_dom.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PfamiPF00637. Clathrin. 1 hit.
[Graphical view]
PIRSFiPIRSF028921. VPS41. 1 hit.
SMARTiSM00299. CLH. 1 hit.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS50236. CHCR. 1 hit.
PS50089. ZF_RING_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5KU39-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAEAEEQETE SLEESTDESE EESEEEPKLK YERLSNGVTE ILQKDAASCM
60 70 80 90 100
TVHDKFLALG THYGKVYLLD VQGNITQKFD VSPVKINQIS LDDSGEHMGV
110 120 130 140 150
CSEDGKLQVF GLYSGEEFHE TFDCPIKIIA VHPQFVRSSC KQFVTGGKKL
160 170 180 190 200
LLFERTWMNR WKSSVLHEGE GNIRSVKWRG HLIAWANNMG VKVFDITSKQ
210 220 230 240 250
RISNVPRDDI SLRPDMYPCS LCWKDNVTLI IGWGTSIKIC SVKERHASEM
260 270 280 290 300
RDLPSRYVEI VSQFETEFYI SGLAPLCDQL VVLSYVKEVS EKTEREYCAR
310 320 330 340 350
PRLDIIQPLP ETCEEISSDA LTVRGFQENE CRDYHLEYSE GESLFYVVSP
360 370 380 390 400
RDVVVAKERD QDDHIDWLLE KKKYEEALMA AEISQRNIKR HKILDIGLAY
410 420 430 440 450
VNHLVERGEY DMAARKCQKI LGKNASLWEY EVYKFKEIGQ LKAISPYLPR
460 470 480 490 500
GDPVLKPLIY EMILHEFLES DYEGFATLIR EWPGDLYNNS VIVQAVRDHL
510 520 530 540 550
KKDSQNKTLL KTLAELYTYD KNYGNALEIY LTLRHKDVFQ LIHKHNLFSS
560 570 580 590 600
IKDKIVLLMD FDSEKAVDML LDNEDKISIK KVVEELEDRP ELQHVYLHKL
610 620 630 640 650
FKRDHHKGQR YHEKQISLYA EYDRPNLLPF LRDSTHCPLE KALEICQQRN
660 670 680 690 700
FVEETVYLLS RMGNSRSALK MIMEELHDVD KAIEFAKEQD DGELWEDLIL
710 720 730 740 750
YSIDKPPFIT GLLNNIGTHV DPILLIHRIK EGMEIPNLRD SLVKILQDYN
760 770 780 790 800
LQILLREGCK KILVADSLSL LKKMHRTQMK GVLVDEENIC ESCLSPILPT
810 820 830 840 850
DAAKPFSVVV FHCRHMFHKE CLPMPSMNAP AQYCNICSAK NRGPGSAILE

MKK
Length:853
Mass (Da):98,602
Last modified:February 15, 2005 - v1
Checksum:iA4D54AA7C5D0F2DD
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti16 – 161T → K in BAE37664 (PubMed:16141072).Curated
Sequence conflicti190 – 1901G → C in BAC34707 (PubMed:16141072).Curated
Sequence conflicti401 – 4011V → L in AAN73032 (Ref. 2) Curated
Sequence conflicti427 – 4282LW → HR in AAN73032 (Ref. 2) Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB028843 mRNA. Translation: BAD88410.1.
AF327407 mRNA. Translation: AAN73032.1.
AK051658 mRNA. Translation: BAC34707.1.
AK164177 mRNA. Translation: BAE37664.1.
BC023243 mRNA. Translation: AAH23243.1.
BC049916 mRNA. Translation: AAH49916.1.
BC119362 mRNA. Translation: AAI19363.1.
BC125299 mRNA. Translation: AAI25300.1.
CCDSiCCDS26257.1.
RefSeqiNP_742118.3. NM_172120.4.
UniGeneiMm.27389.

Genome annotation databases

EnsembliENSMUST00000072961; ENSMUSP00000072729; ENSMUSG00000041236.
GeneIDi218035.
KEGGimmu:218035.
UCSCiuc007pok.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB028843 mRNA. Translation: BAD88410.1.
AF327407 mRNA. Translation: AAN73032.1.
AK051658 mRNA. Translation: BAC34707.1.
AK164177 mRNA. Translation: BAE37664.1.
BC023243 mRNA. Translation: AAH23243.1.
BC049916 mRNA. Translation: AAH49916.1.
BC119362 mRNA. Translation: AAI19363.1.
BC125299 mRNA. Translation: AAI25300.1.
CCDSiCCDS26257.1.
RefSeqiNP_742118.3. NM_172120.4.
UniGeneiMm.27389.

3D structure databases

ProteinModelPortaliQ5KU39.
SMRiQ5KU39. Positions 172-246, 519-553, 658-700.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi229988. 10 interactions.
IntActiQ5KU39. 10 interactions.
MINTiMINT-4116535.
STRINGi10090.ENSMUSP00000072729.

PTM databases

iPTMnetiQ5KU39.
PhosphoSiteiQ5KU39.

Proteomic databases

EPDiQ5KU39.
MaxQBiQ5KU39.
PaxDbiQ5KU39.
PRIDEiQ5KU39.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000072961; ENSMUSP00000072729; ENSMUSG00000041236.
GeneIDi218035.
KEGGimmu:218035.
UCSCiuc007pok.2. mouse.

Organism-specific databases

CTDi27072.
MGIiMGI:1929215. Vps41.

Phylogenomic databases

eggNOGiKOG2066. Eukaryota.
ENOG410XQBC. LUCA.
GeneTreeiENSGT00390000000481.
HOVERGENiHBG056494.
InParanoidiQ5KU39.
OMAiICSAKHR.
OrthoDBiEOG7DVD9K.
PhylomeDBiQ5KU39.
TreeFamiTF300451.

Miscellaneous databases

ChiTaRSiVps41. mouse.
PROiQ5KU39.
SOURCEiSearch...

Gene expression databases

BgeeiQ5KU39.
CleanExiMM_VPS41.
GenevisibleiQ5KU39. MM.

Family and domain databases

Gene3Di1.25.40.10. 1 hit.
2.130.10.10. 1 hit.
3.30.40.10. 1 hit.
InterProiIPR000547. Clathrin_H-chain/VPS_repeat.
IPR011990. TPR-like_helical_dom.
IPR016902. VPS41.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR017986. WD40_repeat_dom.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PfamiPF00637. Clathrin. 1 hit.
[Graphical view]
PIRSFiPIRSF028921. VPS41. 1 hit.
SMARTiSM00299. CLH. 1 hit.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS50236. CHCR. 1 hit.
PS50089. ZF_RING_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Mouse cDNA for yeast Vam2p Homologue (mVAM2)."
    Wakabayashi T., Nakamura N., Wada Y., Futai M.
    Submitted (JUN-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: C57BL/6J.
  2. "A mouse homolog of yeast VPS41."
    Dell'Angelica E.C., Peters L.L.
    Submitted (DEC-2000) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: C3H/HeJ.
    Tissue: Liver.
  3. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
    Tissue: Hippocampus and Spinal ganglion.
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: Czech II and FVB/N.
    Tissue: Brain, Kidney and Mammary tumor.
  5. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brown adipose tissue, Kidney, Lung and Testis.

Entry informationi

Entry nameiVPS41_MOUSE
AccessioniPrimary (citable) accession number: Q5KU39
Secondary accession number(s): Q05AE9
, Q3TPS1, Q80V99, Q8BKK6, Q8CG01, Q8CJC3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 17, 2006
Last sequence update: February 15, 2005
Last modified: June 8, 2016
This is version 99 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.