UniProtKB - O75351 (VPS4B_HUMAN)
Vacuolar protein sorting-associated protein 4B
VPS4B
Functioni
Catalytic activityi
- EC:3.6.4.6
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 174 – 181 | ATPSequence analysis | 8 |
GO - Molecular functioni
- ATPase activity Source: UniProtKB
- ATP binding Source: UniProtKB-KW
- identical protein binding Source: UniProtKB
- microtubule-severing ATPase activity Source: GO_Central
- protein-containing complex binding Source: UniProtKB
- protein C-terminus binding Source: UniProtKB
- protein homodimerization activity Source: UniProtKB
GO - Biological processi
- cholesterol transport Source: Ensembl
- cytoplasmic microtubule organization Source: GO_Central
- endosomal transport Source: MGI
- endosome to lysosome transport via multivesicular body sorting pathway Source: UniProtKB
- ESCRT III complex disassembly Source: UniProtKB
- late endosomal microautophagy Source: Ensembl
- macroautophagy Source: ParkinsonsUK-UCL
- midbody abscission Source: UniProtKB
- mitotic metaphase plate congression Source: UniProtKB
- multivesicular body assembly Source: ParkinsonsUK-UCL
- negative regulation of cell death Source: UniProtKB
- negative regulation of exosomal secretion Source: UniProtKB
- nucleus organization Source: UniProtKB
- positive regulation of centriole elongation Source: UniProtKB
- positive regulation of exosomal secretion Source: UniProtKB
- positive regulation of G2/M transition of mitotic cell cycle Source: UniProtKB
- positive regulation of viral life cycle Source: UniProtKB
- positive regulation of viral process Source: UniProtKB
- positive regulation of viral release from host cell Source: UniProtKB
- potassium ion transport Source: Ensembl
- protein depolymerization Source: UniProtKB
- protein transport Source: UniProtKB-KW
- regulation of centrosome duplication Source: UniProtKB
- regulation of mitotic spindle assembly Source: UniProtKB
- regulation of viral process Source: UniProtKB
- response to lipid Source: UniProtKB
- ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway Source: UniProtKB
- ubiquitin-independent protein catabolic process via the multivesicular body sorting pathway Source: UniProtKB
- viral budding via host ESCRT complex Source: UniProtKB
- viral life cycle Source: Reactome
- viral release from host cell Source: UniProtKB
Keywordsi
Molecular function | Hydrolase |
Biological process | Cell cycle, Cell division, Protein transport, Transport |
Ligand | ATP-binding, Nucleotide-binding |
Enzyme and pathway databases
PathwayCommonsi | O75351 |
Reactomei | R-HSA-162588, Budding and maturation of HIV virion R-HSA-917729, Endosomal Sorting Complex Required For Transport (ESCRT) |
Names & Taxonomyi
Protein namesi | Recommended name: Vacuolar protein sorting-associated protein 4B (EC:3.6.4.6)Alternative name(s): Cell migration-inducing gene 1 protein Suppressor of K(+) transport growth defect 1 Short name: Protein SKD1 |
Gene namesi | Name:VPS4B Synonyms:SKD1, VPS42 ORF Names:MIG1 |
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:ENSG00000119541.9 |
HGNCi | HGNC:10895, VPS4B |
MIMi | 609983, gene |
neXtProti | NX_O75351 |
Subcellular locationi
Endosome
- Late endosome membrane Curated; Peripheral membrane protein Curated
Other locations
Note: Membrane-associated in the prevacuolar endosomal compartment. Localized in HIV-1 particles purified from acutely infected cells.
Cytoskeleton
- centrosome Source: UniProtKB
- spindle pole Source: UniProtKB
Cytosol
- cytosol Source: Reactome
Endosome
- endosome Source: MGI
- endosome membrane Source: UniProtKB
- late endosome membrane Source: UniProtKB-SubCell
Extracellular region or secreted
- extracellular exosome Source: UniProtKB
Nucleus
- nucleus Source: UniProtKB
Other locations
- cytoplasm Source: UniProtKB
- Flemming body Source: UniProtKB
Keywords - Cellular componenti
Endosome, MembranePathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 15 | A → D: Reduces HIV-1 release 10-fold; when associated with D-66. 1 Publication | 1 | |
Mutagenesisi | 15 | A → D: Reduces HIV-1 release 2-fold. 1 Publication | 1 | |
Mutagenesisi | 66 | L → D: Reduces HIV-1 release 10-fold; when associated with D-15. 1 Publication | 1 | |
Mutagenesisi | 66 | L → D: Reduces HIV-1 release 3-fold. 1 Publication | 1 | |
Mutagenesisi | 208 – 209 | WL → AA: Strongly impairs HIV-1 release. 1 Publication | 2 | |
Mutagenesisi | 210 | G → A: Impairs HIV-1 release. 1 Publication | 1 | |
Mutagenesisi | 235 | E → Q: Defective in vacuolar protein sorting. 1 Publication | 1 | |
Mutagenesisi | 390 – 396 | Missing : Abolishes interaction with VTA1. 1 Publication | 7 |
Organism-specific databases
DisGeNETi | 9525 |
MalaCardsi | VPS4B |
OpenTargetsi | ENSG00000119541 |
Orphaneti | 99789, Dentin dysplasia type I |
PharmGKBi | PA35795 |
Miscellaneous databases
Pharosi | O75351, Tbio |
Chemistry databases
ChEMBLi | CHEMBL2311229 |
Polymorphism and mutation databases
BioMutai | VPS4B |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000084767 | 1 – 444 | Vacuolar protein sorting-associated protein 4BAdd BLAST | 444 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 93 | PhosphoserineCombined sources | 1 | |
Modified residuei | 102 | PhosphoserineCombined sources | 1 | |
Modified residuei | 108 | PhosphoserineCombined sources | 1 | |
Modified residuei | 410 | PhosphoserineCombined sources | 1 |
Keywords - PTMi
PhosphoproteinProteomic databases
EPDi | O75351 |
jPOSTi | O75351 |
MassIVEi | O75351 |
MaxQBi | O75351 |
PaxDbi | O75351 |
PeptideAtlasi | O75351 |
PRIDEi | O75351 |
ProteomicsDBi | 49918 |
PTM databases
iPTMneti | O75351 |
MetOSitei | O75351 |
PhosphoSitePlusi | O75351 |
Expressioni
Tissue specificityi
Gene expression databases
Bgeei | ENSG00000119541, Expressed in esophagus squamous epithelium and 240 other tissues |
ExpressionAtlasi | O75351, baseline and differential |
Genevisiblei | O75351, HS |
Organism-specific databases
HPAi | ENSG00000119541, Low tissue specificity |
Interactioni
Subunit structurei
Proposed to be monomeric or homodimeric in nucleotide-free form and to oligomerize upon binding to ATP to form two stacked hexameric or heptameric rings with a central pore through which ESCRT-III substrates are translocated in an ATP-dependent manner. In vitro, associates on the inside of a helical tubular structure formed by a CHMP2A-CHMP3 polymer.
Interacts with CHMP1A, CHMP1B, CHMP2A, CHMP4B and CHMP6.
Interacts with VPS4A; the interaction suggests a heteromeric assembly with VPS4A.
Interacts with VTA1.
7 PublicationsBinary interactionsi
Hide detailsO75351
GO - Molecular functioni
- identical protein binding Source: UniProtKB
- protein C-terminus binding Source: UniProtKB
- protein homodimerization activity Source: UniProtKB
Protein-protein interaction databases
BioGRIDi | 114901, 61 interactors |
ComplexPortali | CPX-338, VPS4A/B complex |
DIPi | DIP-53790N |
IntActi | O75351, 19 interactors |
STRINGi | 9606.ENSP00000238497 |
Miscellaneous databases
RNActi | O75351, protein |
Structurei
Secondary structure
3D structure databases
SMRi | O75351 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | O75351 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 4 – 82 | MITAdd BLAST | 79 |
Coiled coil
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Coiled coili | 19 – 82 | Sequence analysisAdd BLAST | 64 |
Domaini
Sequence similaritiesi
Keywords - Domaini
Coiled coilPhylogenomic databases
eggNOGi | KOG0739, Eukaryota |
GeneTreei | ENSGT00940000154973 |
HOGENOMi | CLU_000688_21_2_1 |
InParanoidi | O75351 |
OMAi | VKCTEYL |
OrthoDBi | 787710at2759 |
PhylomeDBi | O75351 |
TreeFami | TF105012 |
Family and domain databases
InterProi | View protein in InterPro IPR003593, AAA+_ATPase IPR041569, AAA_lid_3 IPR003959, ATPase_AAA_core IPR003960, ATPase_AAA_CS IPR007330, MIT IPR036181, MIT_dom_sf IPR027417, P-loop_NTPase IPR015415, Vps4_C |
Pfami | View protein in Pfam PF00004, AAA, 1 hit PF17862, AAA_lid_3, 1 hit PF04212, MIT, 1 hit PF09336, Vps4_C, 1 hit |
SMARTi | View protein in SMART SM00382, AAA, 1 hit SM00745, MIT, 1 hit |
SUPFAMi | SSF116846, SSF116846, 1 hit SSF52540, SSF52540, 1 hit |
PROSITEi | View protein in PROSITE PS00674, AAA, 1 hit |
(1+)i Sequence
Sequence statusi: Complete.
This entry has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All
10 20 30 40 50
MSSTSPNLQK AIDLASKAAQ EDKAGNYEEA LQLYQHAVQY FLHVVKYEAQ
60 70 80 90 100
GDKAKQSIRA KCTEYLDRAE KLKEYLKNKE KKAQKPVKEG QPSPADEKGN
110 120 130 140 150
DSDGEGESDD PEKKKLQNQL QGAIVIERPN VKWSDVAGLE GAKEALKEAV
160 170 180 190 200
ILPIKFPHLF TGKRTPWRGI LLFGPPGTGK SYLAKAVATE ANNSTFFSIS
210 220 230 240 250
SSDLVSKWLG ESEKLVKNLF QLARENKPSI IFIDEIDSLC GSRSENESEA
260 270 280 290 300
ARRIKTEFLV QMQGVGVDND GILVLGATNI PWVLDSAIRR RFEKRIYIPL
310 320 330 340 350
PEPHARAAMF KLHLGTTQNS LTEADFRELG RKTDGYSGAD ISIIVRDALM
360 370 380 390 400
QPVRKVQSAT HFKKVRGPSR ADPNHLVDDL LTPCSPGDPG AIEMTWMDVP
410 420 430 440
GDKLLEPVVS MSDMLRSLSN TKPTVNEHDL LKLKKFTEDF GQEG
Computationally mapped potential isoform sequencesi
There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketK7EKZ3 | K7EKZ3_HUMAN | Vacuolar protein sorting-associated... | VPS4B | 128 | Annotation score: | ||
K7EL71 | K7EL71_HUMAN | Vacuolar protein sorting-associated... | VPS4B | 111 | Annotation score: |
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 114 | K → R in AAC39874 (PubMed:9653160).Curated | 1 | |
Sequence conflicti | 127 | E → D in AAC39874 (PubMed:9653160).Curated | 1 | |
Sequence conflicti | 342 | S → G in AAC39874 (PubMed:9653160).Curated | 1 |
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_023385 | 58 | I → M Common polymorphism; induces thermal instability. 1 PublicationCorresponds to variant dbSNP:rs17688948Ensembl. | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AF195514 mRNA Translation: AAG33022.1 AF282904 Genomic DNA Translation: AAG01471.1 AF038960 mRNA Translation: AAC39874.1 AY232629 mRNA Translation: AAP59551.1 CH471096 Genomic DNA Translation: EAW63143.1 BC039574 mRNA Translation: AAH39574.1 |
CCDSi | CCDS11983.1 |
RefSeqi | NP_004860.2, NM_004869.3 |
Genome annotation databases
Ensembli | ENST00000238497; ENSP00000238497; ENSG00000119541 |
GeneIDi | 9525 |
KEGGi | hsa:9525 |
UCSCi | uc002lix.4, human |
Keywords - Coding sequence diversityi
PolymorphismSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AF195514 mRNA Translation: AAG33022.1 AF282904 Genomic DNA Translation: AAG01471.1 AF038960 mRNA Translation: AAC39874.1 AY232629 mRNA Translation: AAP59551.1 CH471096 Genomic DNA Translation: EAW63143.1 BC039574 mRNA Translation: AAH39574.1 |
CCDSi | CCDS11983.1 |
RefSeqi | NP_004860.2, NM_004869.3 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1WR0 | NMR | - | A | 1-77 | [»] | |
1XWI | X-ray | 2.80 | A | 123-444 | [»] | |
2CPT | NMR | - | A | 1-104 | [»] | |
2JQH | NMR | - | A | 1-86 | [»] | |
2JQK | NMR | - | A | 1-86 | [»] | |
4U7Y | X-ray | 2.50 | A | 1-89 | [»] | |
SMRi | O75351 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 114901, 61 interactors |
ComplexPortali | CPX-338, VPS4A/B complex |
DIPi | DIP-53790N |
IntActi | O75351, 19 interactors |
STRINGi | 9606.ENSP00000238497 |
Chemistry databases
ChEMBLi | CHEMBL2311229 |
PTM databases
iPTMneti | O75351 |
MetOSitei | O75351 |
PhosphoSitePlusi | O75351 |
Polymorphism and mutation databases
BioMutai | VPS4B |
Proteomic databases
EPDi | O75351 |
jPOSTi | O75351 |
MassIVEi | O75351 |
MaxQBi | O75351 |
PaxDbi | O75351 |
PeptideAtlasi | O75351 |
PRIDEi | O75351 |
ProteomicsDBi | 49918 |
Protocols and materials databases
Antibodypediai | 23094, 174 antibodies |
DNASUi | 9525 |
Genome annotation databases
Ensembli | ENST00000238497; ENSP00000238497; ENSG00000119541 |
GeneIDi | 9525 |
KEGGi | hsa:9525 |
UCSCi | uc002lix.4, human |
Organism-specific databases
CTDi | 9525 |
DisGeNETi | 9525 |
EuPathDBi | HostDB:ENSG00000119541.9 |
GeneCardsi | VPS4B |
HGNCi | HGNC:10895, VPS4B |
HPAi | ENSG00000119541, Low tissue specificity |
MalaCardsi | VPS4B |
MIMi | 609983, gene |
neXtProti | NX_O75351 |
OpenTargetsi | ENSG00000119541 |
Orphaneti | 99789, Dentin dysplasia type I |
PharmGKBi | PA35795 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG0739, Eukaryota |
GeneTreei | ENSGT00940000154973 |
HOGENOMi | CLU_000688_21_2_1 |
InParanoidi | O75351 |
OMAi | VKCTEYL |
OrthoDBi | 787710at2759 |
PhylomeDBi | O75351 |
TreeFami | TF105012 |
Enzyme and pathway databases
PathwayCommonsi | O75351 |
Reactomei | R-HSA-162588, Budding and maturation of HIV virion R-HSA-917729, Endosomal Sorting Complex Required For Transport (ESCRT) |
Miscellaneous databases
BioGRID-ORCSi | 9525, 58 hits in 846 CRISPR screens |
ChiTaRSi | VPS4B, human |
EvolutionaryTracei | O75351 |
GeneWikii | VPS4B |
GenomeRNAii | 9525 |
Pharosi | O75351, Tbio |
PROi | PR:O75351 |
RNActi | O75351, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000119541, Expressed in esophagus squamous epithelium and 240 other tissues |
ExpressionAtlasi | O75351, baseline and differential |
Genevisiblei | O75351, HS |
Family and domain databases
InterProi | View protein in InterPro IPR003593, AAA+_ATPase IPR041569, AAA_lid_3 IPR003959, ATPase_AAA_core IPR003960, ATPase_AAA_CS IPR007330, MIT IPR036181, MIT_dom_sf IPR027417, P-loop_NTPase IPR015415, Vps4_C |
Pfami | View protein in Pfam PF00004, AAA, 1 hit PF17862, AAA_lid_3, 1 hit PF04212, MIT, 1 hit PF09336, Vps4_C, 1 hit |
SMARTi | View protein in SMART SM00382, AAA, 1 hit SM00745, MIT, 1 hit |
SUPFAMi | SSF116846, SSF116846, 1 hit SSF52540, SSF52540, 1 hit |
PROSITEi | View protein in PROSITE PS00674, AAA, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | VPS4B_HUMAN | |
Accessioni | O75351Primary (citable) accession number: O75351 Secondary accession number(s): Q69HW4, Q9GZS7 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | December 1, 2000 |
Last sequence update: | January 16, 2004 | |
Last modified: | December 2, 2020 | |
This is version 192 of the entry and version 2 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
3D-structure, Reference proteomeDocuments
- 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 - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families - Human chromosome 18
Human chromosome 18: entries, gene names and cross-references to MIM - Human entries with polymorphisms or disease mutations
List of human entries with polymorphisms or disease mutations