UniProtKB - P49754 (VPS41_HUMAN)
Vacuolar protein sorting-associated protein 41 homolog
VPS41
Functioni
Miscellaneous
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 791 – 839 | RING-type; atypicalPROSITE-ProRule annotationAdd BLAST | 49 |
GO - Molecular functioni
- identical protein binding Source: IntAct
- metal ion binding Source: UniProtKB-KW
- microtubule binding Source: Ensembl
- protein self-association Source: Ensembl
- Rab GTPase binding Source: GO_Central
GO - Biological processi
- cellular response to starvation Source: GO_Central
- endosomal vesicle fusion Source: UniProtKB
- endosome to lysosome transport Source: UniProtKB
- Golgi vesicle transport Source: UniProtKB
- late endosome to lysosome transport Source: UniProtKB
- macroautophagy Source: GO_Central
- protein targeting to vacuole Source: GO_Central
- regulated exocytosis Source: Ensembl
Keywordsi
Biological process | Autophagy, Protein transport, Transport |
Ligand | Metal-binding, Zinc |
Enzyme and pathway databases
PathwayCommonsi | P49754 |
Names & Taxonomyi
Protein namesi | Recommended name: Vacuolar protein sorting-associated protein 41 homologAlternative name(s): S53 |
Gene namesi | Name:VPS41 |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
EuPathDBi | HostDB:ENSG00000006715.15 |
HGNCi | HGNC:12713, VPS41 |
MIMi | 605485, gene |
neXtProti | NX_P49754 |
Subcellular locationi
Endosome
- Endosome membrane 1 Publication
- Late endosome 2 Publications
- Early endosome 1 Publication
Lysosome
- Lysosome 1 Publication
Golgi apparatus
- trans-Golgi network 1 Publication
Other locations
- clathrin-coated vesicle 1 Publication
Cytoskeleton
- microtubule cytoskeleton Source: Ensembl
Cytosol
- cytosol Source: UniProtKB
Endosome
- early endosome Source: UniProtKB-SubCell
- endosome membrane Source: UniProtKB
- late endosome Source: GO_Central
- late endosome membrane Source: UniProtKB
Golgi apparatus
- Golgi apparatus Source: UniProtKB-SubCell
Lysosome
- lysosomal membrane Source: UniProtKB
Other locations
- AP-3 adaptor complex Source: Ensembl
- clathrin-coated vesicle Source: UniProtKB
- Golgi-associated vesicle Source: UniProtKB
- HOPS complex Source: UniProtKB
- membrane Source: UniProtKB
Keywords - Cellular componenti
Cytoplasmic vesicle, Endosome, Golgi apparatus, Lysosome, MembranePathology & Biotechi
Organism-specific databases
DisGeNETi | 27072 |
OpenTargetsi | ENSG00000006715 |
PharmGKBi | PA37328 |
Miscellaneous databases
Pharosi | P49754, Tbio |
Polymorphism and mutation databases
BioMutai | VPS41 |
DMDMi | 218512109 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000212823 | 1 – 854 | Vacuolar protein sorting-associated protein 41 homologAdd BLAST | 854 |
Proteomic databases
EPDi | P49754 |
jPOSTi | P49754 |
MassIVEi | P49754 |
MaxQBi | P49754 |
PaxDbi | P49754 |
PeptideAtlasi | P49754 |
PRIDEi | P49754 |
ProteomicsDBi | 20017 56068 [P49754-1] 56069 [P49754-2] |
PTM databases
iPTMneti | P49754 |
PhosphoSitePlusi | P49754 |
Expressioni
Gene expression databases
Bgeei | ENSG00000006715, Expressed in corpus callosum and 224 other tissues |
ExpressionAtlasi | P49754, baseline and differential |
Genevisiblei | P49754, HS |
Organism-specific databases
HPAi | ENSG00000006715, Low tissue specificity |
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 (PubMed:23351085, PubMed:25445562, PubMed:25908847).
Interacts with RILP, MON1B (PubMed:20434987, PubMed:25445562).
Interacts with ARL8B (GTP-bound form); involved in recruitment to lysosomes and probably hierarchial assembly of the HOPS complex at lysosomal membranes (PubMed:25908847). In vitro can self-assemble into a lattice (PubMed:24210660). Associates with adaptor protein complex 3 (AP-3) and clathrin:AP-3 complexes (PubMed:21411634).
Interacts with STX17; this interaction is increased in the absence of TMEM39A (PubMed:31806350).
4 Publications4 PublicationsBinary interactionsi
Hide detailsP49754
With | #Exp. | IntAct |
---|---|---|
RILP [Q96NA2] | 4 | EBI-2130459,EBI-2856119 |
VIPAS39 [Q9H9C1] | 4 | EBI-2130459,EBI-749080 |
VPS18 [Q9P253] | 3 | EBI-2130459,EBI-1053363 |
itself | 2 | EBI-2130459,EBI-2130459 |
GO - Molecular functioni
- identical protein binding Source: IntAct
- microtubule binding Source: Ensembl
- protein self-association Source: Ensembl
- Rab GTPase binding Source: GO_Central
Protein-protein interaction databases
BioGRIDi | 117982, 37 interactors |
CORUMi | P49754 |
IntActi | P49754, 24 interactors |
MINTi | P49754 |
STRINGi | 9606.ENSP00000309457 |
Miscellaneous databases
RNActi | P49754, protein |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Repeati | 568 – 712 | CHCRAdd BLAST | 145 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 1 – 540 | Interaction with ARL8B1 PublicationAdd BLAST | 540 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 18 – 27 | Poly-Glu | 10 |
Sequence similaritiesi
Zinc finger
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 791 – 839 | RING-type; atypicalPROSITE-ProRule annotationAdd BLAST | 49 |
Keywords - Domaini
Zinc-fingerPhylogenomic databases
eggNOGi | KOG2066, Eukaryota |
GeneTreei | ENSGT00390000000481 |
HOGENOMi | CLU_001285_2_2_1 |
InParanoidi | P49754 |
OMAi | RCSLGLI |
OrthoDBi | 722805at2759 |
PhylomeDBi | P49754 |
TreeFami | TF300451 |
Family and domain databases
Gene3Di | 1.25.40.10, 1 hit 2.130.10.10, 1 hit |
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 IPR036322, WD40_repeat_dom_sf IPR001841, Znf_RING |
Pfami | View protein in Pfam PF00637, Clathrin, 1 hit |
PIRSFi | PIRSF028921, VPS41, 1 hit |
SMARTi | View protein in SMART SM00299, CLH, 1 hit |
SUPFAMi | SSF50978, SSF50978, 1 hit |
PROSITEi | View protein in PROSITE PS50236, CHCR, 1 hit PS50089, ZF_RING_2, 1 hit |
s (3+)i Sequence
Sequence statusi: Complete.
This entry describes 3 produced by isoformsialternative splicing. AlignAdd to basketThis entry has 3 described isoforms and 7 potential isoforms that are computationally mapped.Show allAlign All
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MAEAEEQETG SLEESTDESE EEESEEEPKL KYERLSNGVT EILQKDAASC
60 70 80 90 100
MTVHDKFLAL GTHYGKVYLL DVQGNITQKF DVSPVKINQI SLDESGEHMG
110 120 130 140 150
VCSEDGKVQV FGLYSGEEFH ETFDCPIKII AVHPHFVRSS CKQFVTGGKK
160 170 180 190 200
LLLFERSWMN RWKSAVLHEG EGNIRSVKWR GHLIAWANNM GVKIFDIISK
210 220 230 240 250
QRITNVPRDD ISLRPDMYPC SLCWKDNVTL IIGWGTSVKV CSVKERHASE
260 270 280 290 300
MRDLPSRYVE IVSQFETEFY ISGLAPLCDQ LVVLSYVKEI SEKTEREYCA
310 320 330 340 350
RPRLDIIQPL SETCEEISSD ALTVRGFQEN ECRDYHLEYS EGESLFYIVS
360 370 380 390 400
PRDVVVAKER DQDDHIDWLL EKKKYEEALM AAEISQKNIK RHKILDIGLA
410 420 430 440 450
YINHLVERGD YDIAARKCQK ILGKNAALWE YEVYKFKEIG QLKAISPYLP
460 470 480 490 500
RGDPVLKPLI YEMILHEFLE SDYEGFATLI REWPGDLYNN SVIVQAVRDH
510 520 530 540 550
LKKDSQNKTL LKTLAELYTY DKNYGNALEI YLTLRHKDVF QLIHKHNLFS
560 570 580 590 600
SIKDKIVLLM DFDSEKAVDM LLDNEDKISI KKVVEELEDR PELQHVYLHK
610 620 630 640 650
LFKRDHHKGQ RYHEKQISLY AEYDRPNLLP FLRDSTHCPL EKALEICQQR
660 670 680 690 700
NFVEETVYLL SRMGNSRSAL KMIMEELHDV DKAIEFAKEQ DDGELWEDLI
710 720 730 740 750
LYSIDKPPFI TGLLNNIGTH VDPILLIHRI KEGMEIPNLR DSLVKILQDY
760 770 780 790 800
NLQILLREGC KKILVADSLS LLKKMHRTQM KGVLVDEENI CESCLSPILP
810 820 830 840 850
SDAAKPFSVV VFHCRHMFHK ECLPMPSMNS AAQFCNICSA KNRGPGSAIL
EMKK
Computationally mapped potential isoform sequencesi
There are 7 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketH7C0K2 | H7C0K2_HUMAN | Vacuolar protein sorting-associated... | VPS41 | 109 | Annotation score: | ||
H7BZX6 | H7BZX6_HUMAN | Vacuolar protein sorting-associated... | VPS41 | 150 | Annotation score: | ||
H7BXH3 | H7BXH3_HUMAN | Vacuolar protein sorting-associated... | VPS41 | 209 | Annotation score: | ||
C9JU58 | C9JU58_HUMAN | Vacuolar protein sorting-associated... | VPS41 | 156 | Annotation score: | ||
C9J2U9 | C9J2U9_HUMAN | Vacuolar protein sorting-associated... | VPS41 | 73 | Annotation score: | ||
C9J3F8 | C9J3F8_HUMAN | Vacuolar protein sorting-associated... | VPS41 | 177 | Annotation score: | ||
C9JZ11 | C9JZ11_HUMAN | Vacuolar protein sorting-associated... | VPS41 | 104 | Annotation score: |
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 5 | E → V in AAB47563 (PubMed:9159129).Curated | 1 | |
Sequence conflicti | 615 – 618 | KQIS → WHEG in AAC42004 (PubMed:7596406).Curated | 4 | |
Sequence conflicti | 736 – 744 | IPNLRDSLV → DPQFERFLG in AAC42004 (PubMed:7596406).Curated | 9 |
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_047914 | 146 | T → P Disrupts interaction with ARL8B; impairs lysosomal localization and degradation of endocytosed cargo. 1 PublicationCorresponds to variant dbSNP:rs35693565Ensembl. | 1 | |
Natural variantiVAR_047915 | 647 | C → R. Corresponds to variant dbSNP:rs11762417Ensembl. | 1 | |
Natural variantiVAR_047916 | 843 | R → H. Corresponds to variant dbSNP:rs1059508Ensembl. | 1 |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_054169 | 83 – 107 | Missing in isoform 3. CuratedAdd BLAST | 25 | |
Alternative sequenceiVSP_006751 | 802 | D → E in isoform 2. 1 Publication | 1 | |
Alternative sequenceiVSP_006752 | 803 – 854 | Missing in isoform 2. 1 PublicationAdd BLAST | 52 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U87281 mRNA Translation: AAB47758.1 U87309 mRNA Translation: AAB47563.1 AC004850 Genomic DNA No translation available. AC005247 Genomic DNA No translation available. AC011292 Genomic DNA No translation available. BC044851 mRNA Translation: AAH44851.1 L40398 mRNA Translation: AAC42004.1 |
CCDSi | CCDS5457.1 [P49754-1] CCDS5458.2 [P49754-3] |
RefSeqi | NP_055211.2, NM_014396.3 [P49754-1] NP_542198.2, NM_080631.3 [P49754-3] |
Genome annotation databases
Ensembli | ENST00000310301; ENSP00000309457; ENSG00000006715 [P49754-1] ENST00000395969; ENSP00000379297; ENSG00000006715 [P49754-3] |
GeneIDi | 27072 |
KEGGi | hsa:27072 |
UCSCi | uc003tgy.4, human [P49754-1] |
Keywords - Coding sequence diversityi
Alternative splicing, PolymorphismSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U87281 mRNA Translation: AAB47758.1 U87309 mRNA Translation: AAB47563.1 AC004850 Genomic DNA No translation available. AC005247 Genomic DNA No translation available. AC011292 Genomic DNA No translation available. BC044851 mRNA Translation: AAH44851.1 L40398 mRNA Translation: AAC42004.1 |
CCDSi | CCDS5457.1 [P49754-1] CCDS5458.2 [P49754-3] |
RefSeqi | NP_055211.2, NM_014396.3 [P49754-1] NP_542198.2, NM_080631.3 [P49754-3] |
3D structure databases
SMRi | P49754 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 117982, 37 interactors |
CORUMi | P49754 |
IntActi | P49754, 24 interactors |
MINTi | P49754 |
STRINGi | 9606.ENSP00000309457 |
PTM databases
iPTMneti | P49754 |
PhosphoSitePlusi | P49754 |
Polymorphism and mutation databases
BioMutai | VPS41 |
DMDMi | 218512109 |
Proteomic databases
EPDi | P49754 |
jPOSTi | P49754 |
MassIVEi | P49754 |
MaxQBi | P49754 |
PaxDbi | P49754 |
PeptideAtlasi | P49754 |
PRIDEi | P49754 |
ProteomicsDBi | 20017 56068 [P49754-1] 56069 [P49754-2] |
Protocols and materials databases
Antibodypediai | 13056, 121 antibodies |
Genome annotation databases
Ensembli | ENST00000310301; ENSP00000309457; ENSG00000006715 [P49754-1] ENST00000395969; ENSP00000379297; ENSG00000006715 [P49754-3] |
GeneIDi | 27072 |
KEGGi | hsa:27072 |
UCSCi | uc003tgy.4, human [P49754-1] |
Organism-specific databases
CTDi | 27072 |
DisGeNETi | 27072 |
EuPathDBi | HostDB:ENSG00000006715.15 |
GeneCardsi | VPS41 |
HGNCi | HGNC:12713, VPS41 |
HPAi | ENSG00000006715, Low tissue specificity |
MIMi | 605485, gene |
neXtProti | NX_P49754 |
OpenTargetsi | ENSG00000006715 |
PharmGKBi | PA37328 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG2066, Eukaryota |
GeneTreei | ENSGT00390000000481 |
HOGENOMi | CLU_001285_2_2_1 |
InParanoidi | P49754 |
OMAi | RCSLGLI |
OrthoDBi | 722805at2759 |
PhylomeDBi | P49754 |
TreeFami | TF300451 |
Enzyme and pathway databases
PathwayCommonsi | P49754 |
Miscellaneous databases
BioGRID-ORCSi | 27072, 384 hits in 853 CRISPR screens |
ChiTaRSi | VPS41, human |
GenomeRNAii | 27072 |
Pharosi | P49754, Tbio |
PROi | PR:P49754 |
RNActi | P49754, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000006715, Expressed in corpus callosum and 224 other tissues |
ExpressionAtlasi | P49754, baseline and differential |
Genevisiblei | P49754, HS |
Family and domain databases
Gene3Di | 1.25.40.10, 1 hit 2.130.10.10, 1 hit |
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 IPR036322, WD40_repeat_dom_sf IPR001841, Znf_RING |
Pfami | View protein in Pfam PF00637, Clathrin, 1 hit |
PIRSFi | PIRSF028921, VPS41, 1 hit |
SMARTi | View protein in SMART SM00299, CLH, 1 hit |
SUPFAMi | SSF50978, SSF50978, 1 hit |
PROSITEi | View protein in PROSITE PS50236, CHCR, 1 hit PS50089, ZF_RING_2, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | VPS41_HUMAN | |
Accessioni | P49754Primary (citable) accession number: P49754 Secondary accession number(s): E9PF36 Q99852 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | October 1, 1996 |
Last sequence update: | December 16, 2008 | |
Last modified: | December 2, 2020 | |
This is version 177 of the entry and version 3 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program | |
Disclaimer | Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care. |
Miscellaneousi
Keywords - Technical termi
Reference proteomeDocuments
- Human chromosome 7
Human chromosome 7: entries, gene names and cross-references to MIM - Human polymorphisms and disease mutations
Index of human polymorphisms and disease mutations - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - SIMILARITY comments
Index of protein domains and families - Human entries with polymorphisms or disease mutations
List of human entries with polymorphisms or disease mutations