O95292 (VAPB_HUMAN) Reviewed, UniProtKB/Swiss-Prot
Last modified
May 1, 2013.
Version 124.
History...
Names·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: Vesicle-associated membrane protein-associated protein B/C Short name=VAMP-B/VAMP-C Short name=VAMP-associated protein B/C Short name=VAP-B/VAP-C | ||||
| Gene names |
| ||||
| Organism | Homo sapiens (Human) [Reference proteome] | ||||
| Taxonomic identifier | 9606 [NCBI] | ||||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo![]() |
Protein attributes
| Sequence length | 243 AA. |
| Sequence status | Complete. |
| Sequence processing | The displayed sequence is further processed into a mature form. |
| Protein existence | Evidence at protein level |
General annotation (Comments)
| Function | Participates in the endoplasmic reticulum unfolded protein response (UPR) by inducing ERN1/IRE1 activity. Involved in cellular calcium homeostasis regulation. Ref.9 Ref.13 Ref.17 |
| Subunit structure | Homodimer, and heterodimer with VAPA. Interacts with VAMP1 and VAMP2. Interacts with HCV NS5A and NS5B. Interacts (via MSP domain) with ZFYVE27. Interacts with RMDN3. Ref.7 Ref.12 Ref.17 |
| Subcellular location | Endoplasmic reticulum membrane; Single-pass type IV membrane protein By similarity. Note: Present in mitochondria-associated membranes that are endoplasmic reticulum membrane regions closely apposed to the outer mitochondrial membrane. Ref.17 |
| Tissue specificity | Ubiquitous. Isoform 1 predominates. |
| Involvement in disease | Amyotrophic lateral sclerosis 8 (ALS8) [MIM:608627]: A neurodegenerative disorder affecting upper motor neurons in the brain and lower motor neurons in the brain stem and spinal cord, resulting in fatal paralysis. Sensory abnormalities are absent. The pathologic hallmarks of the disease include pallor of the corticospinal tract due to loss of motor neurons, presence of ubiquitin-positive inclusions within surviving motor neurons, and deposition of pathologic aggregates. The etiology of amyotrophic lateral sclerosis is likely to be multifactorial, involving both genetic and environmental factors. The disease is inherited in 5-10% of the cases. Spinal muscular atrophy, proximal, adult, autosomal dominant (SMAPAD) [MIM:182980]: A form of spinal muscular atrophy, a neuromuscular disorder characterized by degeneration of the anterior horn cells of the spinal cord, leading to symmetrical muscle weakness and atrophy. SMAPAD is characterized by proximal muscle weakness that begins in the lower limbs and then progresses to upper limbs, onset in late adulthood (after third decade) and a benign course. Most of the patients remain ambulatory 10 to 40 years after clinical onset. |
| Sequence similarities | Belongs to the VAMP-associated protein (VAP) (TC 9.B.17) family. [View classification] Contains 1 MSP domain. |
Ontologies
Binary interactions
With | Entry | #Exp. | IntAct | Notes |
|---|---|---|---|---|
| Epha4 | Q03137 | 2 | EBI-1188298,EBI-1539152 | From a different organism. |
| ZFYVE27 | Q5T4F4 | 2 | EBI-1188298,EBI-3892947 |
Alternative products
| This entry describes 2 isoforms produced by alternative splicing. [Align] [Select] | ||||||
| Isoform 1 (identifier: O95292-1) Also known as: VAP-B; This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. | ||||||
| Isoform 2 (identifier: O95292-2) Also known as: VAP-C; The sequence of this isoform differs from the canonical sequence as follows: 71-99: VMLQPFDYDPNEKSKHKFMVQSMFAPTDT → GRRWTADEEDSAEQQPHFSISPNWEGRRP 100-243: Missing. |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | |||||||||||||||||||||||||
Molecule processing | ||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Initiator methionine | 1 | 1 | Removed Ref.6 | |||||||||||||||||||||||||||
| Chain | 2 – 243 | 242 | Vesicle-associated membrane protein-associated protein B/C | PRO_0000213473 | ||||||||||||||||||||||||||
Regions | ||||||||||||||||||||||||||||||
| Topological domain | 2 – 222 | 221 | Cytoplasmic Potential | |||||||||||||||||||||||||||
| Transmembrane | 223 – 243 | 21 | Helical; Anchor for type IV membrane protein; Potential | |||||||||||||||||||||||||||
| Domain | 7 – 124 | 118 | MSP | |||||||||||||||||||||||||||
| Coiled coil | 159 – 196 | 38 | Potential | |||||||||||||||||||||||||||
Amino acid modifications | ||||||||||||||||||||||||||||||
| Modified residue | 150 | 1 | Phosphothreonine Ref.11 Ref.14 | |||||||||||||||||||||||||||
| Modified residue | 156 | 1 | Phosphoserine Ref.11 Ref.14 | |||||||||||||||||||||||||||
| Modified residue | 160 | 1 | Phosphoserine Ref.11 Ref.14 | |||||||||||||||||||||||||||
Natural variations | ||||||||||||||||||||||||||||||
| Alternative sequence | 71 – 99 | 29 | VMLQP…APTDT → GRRWTADEEDSAEQQPHFSI SPNWEGRRP in isoform 2. | VSP_003277 | ||||||||||||||||||||||||||
| Alternative sequence | 100 – 243 | 144 | Missing in isoform 2. | VSP_003278 | ||||||||||||||||||||||||||
| Natural variant | 46 | 1 | T → I in ALS8; it forms insoluble cytosolic aggregates; cannot activate the UPR pathway through ERN1/IRE1 induction; results in ubiquitinated aggregates accumulation and cell death. Ref.13 | VAR_067964 | ||||||||||||||||||||||||||
| Natural variant | 56 | 1 | P → S in ALS8 and SMAPAD; it forms insoluble cytosolic aggregates; cannot activate the UPR pathway; affects interaction with RMDN3; affects cellular calcium homeostasis. Ref.9 Ref.13 Ref.17 Ref.18 Corresponds to variant rs74315431 [ dbSNP | Ensembl ]. | VAR_026743 | ||||||||||||||||||||||||||
Experimental info | ||||||||||||||||||||||||||||||
| Sequence conflict | 60 | 1 | I → V in AAF67013. Ref.2 | |||||||||||||||||||||||||||
| Sequence conflict | 67 | 1 | I → L in AAF67013. Ref.2 | |||||||||||||||||||||||||||
| Sequence conflict | 97 | 1 | T → P in AAF67013. Ref.2 | |||||||||||||||||||||||||||
| Sequence conflict | 103 – 106 | 4 | EAVW → DGTR in AAF67013. Ref.2 | |||||||||||||||||||||||||||
Secondary structure | ||||||||||||||||||||||||||||||
Helix Strand Turn | ||||||||||||||||||||||||||||||
| Beta strand | 8 – 20 | 13 | ||||||||||||||||||||||||||||
| Beta strand | 26 – 33 | 8 | ||||||||||||||||||||||||||||
| Beta strand | 36 – 38 | 3 | ||||||||||||||||||||||||||||
| Beta strand | 40 – 47 | 8 | ||||||||||||||||||||||||||||
| Turn | 49 – 51 | 3 | ||||||||||||||||||||||||||||
| Beta strand | 52 – 61 | 10 | ||||||||||||||||||||||||||||
| Beta strand | 66 – 73 | 8 | ||||||||||||||||||||||||||||
| Beta strand | 88 – 94 | 7 | ||||||||||||||||||||||||||||
| Turn | 104 – 108 | 5 | ||||||||||||||||||||||||||||
| Beta strand | 111 – 113 | 3 | ||||||||||||||||||||||||||||
| Beta strand | 115 – 124 | 10 | ||||||||||||||||||||||||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "Molecular cloning and characterization of mammalian homologues of vesicle-associated membrane protein-associated (VAMP-associated) proteins." Nishimura Y., Hayashi M., Inada H., Tanaka T. Biochem. Biophys. Res. Commun. 254:21-26(1999) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2). Tissue: Brain and Heart. |
| [2] | "Gene expression profiling in the human hypothalamus-pituitary-adrenal axis and full-length cDNA cloning." Hu R.-M., Han Z.-G., Song H.-D., Peng Y.-D., Huang Q.-H., Ren S.-X., Gu Y.-J., Huang C.-H., Li Y.-B., Jiang C.-L., Fu G., Zhang Q.-H., Gu B.-W., Dai M., Mao Y.-F., Gao G.-F., Rong R., Ye M. Chen J.-L.Proc. Natl. Acad. Sci. U.S.A. 97:9543-9548(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Tissue: Adrenal gland. |
| [3] | "The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment." Clark H.F., Gurney A.L., Abaya E., Baker K., Baldwin D.T., Brush J., Chen J., Chow B., Chui C., Crowley C., Currell B., Deuel B., Dowd P., Eaton D., Foster J.S., Grimaldi C., Gu Q., Hass P.E. Gray A.M.Genome Res. 13:2265-2270(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). |
| [4] | "The DNA sequence and comparative analysis of human chromosome 20." Deloukas P., Matthews L.H., Ashurst J.L., Burton J., Gilbert J.G.R., Jones M., Stavrides G., Almeida J.P., Babbage A.K., Bagguley C.L., Bailey J., Barlow K.F., Bates K.N., Beard L.M., Beare D.M., Beasley O.P., Bird C.P., Blakey S.E. Rogers J.Nature 414:865-871(2001) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [5] | "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] (ISOFORM 1). Tissue: Lymph. |
| [6] | "Exploring proteomes and analyzing protein processing by mass spectrometric identification of sorted N-terminal peptides." Gevaert K., Goethals M., Martens L., Van Damme J., Staes A., Thomas G.R., Vandekerckhove J. Nat. Biotechnol. 21:566-569(2003) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-19. Tissue: Platelet. |
| [7] | "Human VAP-B is involved in hepatitis C virus replication through interaction with NS5A and NS5B." Hamamoto I., Nishimura Y., Okamoto T., Aizaki H., Liu M., Mori Y., Abe T., Suzuki T., Lai M.M., Miyamura T., Moriishi K., Matsuura Y. J. Virol. 79:13473-13482(2005) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH HCV NS5A AND NS5B. |
| [8] | "Global, in vivo, and site-specific phosphorylation dynamics in signaling networks." Olsen J.V., Blagoev B., Gnad F., Macek B., Kumar C., Mortensen P., Mann M. Cell 127:635-648(2006) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. Tissue: Cervix carcinoma. |
| [9] | "Characterization of amyotrophic lateral sclerosis-linked P56S mutation of vesicle-associated membrane protein-associated protein B (VAPB/ALS8)." Kanekura K., Nishimoto I., Aiso S., Matsuoka M. J. Biol. Chem. 281:30223-30233(2006) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION IN ENDOPLASMIC RETICULUM UNFOLDED PROTEIN RESPONSE, CHARACTERIZATION OF VARIANT ALS8 SER-56. |
| [10] | "Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle." Daub H., Olsen J.V., Bairlein M., Gnad F., Oppermann F.S., Korner R., Greff Z., Keri G., Stemmann O., Mann M. Mol. Cell 31:438-448(2008) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. Tissue: Cervix carcinoma. |
| [11] | "A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-150; SER-156 AND SER-160, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [12] | "Promotion of neurite extension by protrudin requires its interaction with vesicle-associated membrane protein-associated protein." Saita S., Shirane M., Natume T., Iemura S., Nakayama K.I. J. Biol. Chem. 284:13766-13777(2009) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH ZFYVE27. |
| [13] | "Characterization of the properties of a novel mutation in VAPB in familial amyotrophic lateral sclerosis." Chen H.J., Anagnostou G., Chai A., Withers J., Morris A., Adhikaree J., Pennetta G., de Belleroche J.S. J. Biol. Chem. 285:40266-40281(2010) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION IN ENDOPLASMIC RETICULUM UNFOLDED PROTEIN RESPONSE, VARIANT ALS8 ILE-46, CHARACTERIZATION OF VARIANTS ALS8 ILE-46 AND SER-56. |
| [14] | "Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis." Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M. Sci. Signal. 3:RA3-RA3(2010) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-150; SER-156 AND SER-160, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [15] | "Initial characterization of the human central proteome." Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J. BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. |
| [16] | "System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation." Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B. Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. |
| [17] | "VAPB interacts with the mitochondrial protein PTPIP51 to regulate calcium homeostasis." De Vos K.J., Morotz G.M., Stoica R., Tudor E.L., Lau K.F., Ackerley S., Warley A., Shaw C.E., Miller C.C. Hum. Mol. Genet. 21:1299-1311(2012) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION IN CELLULAR CALCIUM HOMEOSTASIS REGULATION, SUBCELLULAR LOCATION, INTERACTION WITH RMDN3, CHARACTERIZATION OF VARIANT ALS8 SER-56. |
| [18] | "A mutation in the vesicle-trafficking protein VAPB causes late-onset spinal muscular atrophy and amyotrophic lateral sclerosis." Nishimura A.L., Mitne-Neto M., Silva H.C., Richieri-Costa A., Middleton S., Cascio D., Kok F., Oliveira J.R., Gillingwater T., Webb J., Skehel P., Zatz M. Am. J. Hum. Genet. 75:822-831(2004) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANT ALS8 SER-56, VARIANT SMAPAD SER-56. |
| + | Additional computationally mapped references. |
Web resources
| Alsod ALS genetic mutations db |
| GeneReviews |
| Mendelian genes VAMP (vesicle-associated membrane protein)-associated protein B and C (VAPB) Leiden Open Variation Database (LOVD) |
Cross-references
Sequence databases | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| EMBL GenBank DDBJ | AF086628 mRNA. Translation: AAD13577.1. AF086629 mRNA. Translation: AAD13578.1. AF160212 mRNA. Translation: AAF67013.1. AY358464 mRNA. Translation: AAQ88829.1. AL035455 Genomic DNA. Translation: CAC15021.1. AL035455 Genomic DNA. Translation: CAM27023.1. BC001712 mRNA. Translation: AAH01712.1. | ||||||||||||
| IPI | IPI00006211. IPI00748221. | ||||||||||||
| PIR | JG0186. | ||||||||||||
| RefSeq | NP_001182606.1. NM_001195677.1. NP_004729.1. NM_004738.4. | ||||||||||||
| UniGene | Hs.182625. | ||||||||||||
3D structure databases | |||||||||||||
| PDBe RCSB PDB PDBj |
| ||||||||||||
| ProteinModelPortal | O95292. | ||||||||||||
| ModBase | Search... | ||||||||||||
Protein-protein interaction databases | |||||||||||||
| IntAct | O95292. 11 interactions. | ||||||||||||
| STRING | 9606.ENSP00000417175. | ||||||||||||
Protein family/group databases | |||||||||||||
| TCDB | 9.B.17.1.1. VAMP-associated protein (VAP) family. | ||||||||||||
PTM databases | |||||||||||||
| PhosphoSite | O95292. | ||||||||||||
Proteomic databases | |||||||||||||
| PaxDb | O95292. | ||||||||||||
| PRIDE | O95292. | ||||||||||||
Protocols and materials databases | |||||||||||||
| DNASU | 9217. | ||||||||||||
| StructuralBiologyKnowledgebase | Search... | ||||||||||||
Genome annotation databases | |||||||||||||
| Ensembl | ENST00000395802; ENSP00000379147; ENSG00000124164. ENST00000475243; ENSP00000417175; ENSG00000124164. | ||||||||||||
| GeneID | 9217. | ||||||||||||
| KEGG | hsa:9217. | ||||||||||||
| UCSC | uc002xza.3. human. uc002xzd.2. human. | ||||||||||||
Organism-specific databases | |||||||||||||
| CTD | 9217. | ||||||||||||
| GeneCards | GC20P056964. | ||||||||||||
| HGNC | HGNC:12649. VAPB. | ||||||||||||
| HPA | CAB013722. HPA013144. | ||||||||||||
| MIM | 182980. phenotype. 605704. gene. 608627. phenotype. | ||||||||||||
| neXtProt | NX_O95292. | ||||||||||||
| Orphanet | 209335. Adult-onset proximal spinal muscular atrophy, autosomal dominant. 803. Amyotrophic lateral sclerosis. | ||||||||||||
| PharmGKB | PA37273. | ||||||||||||
| GenAtlas | Search... | ||||||||||||
Phylogenomic databases | |||||||||||||
| eggNOG | COG5066. | ||||||||||||
| HOGENOM | HOG000293182. | ||||||||||||
| HOVERGEN | HBG028551. | ||||||||||||
| InParanoid | O95292. | ||||||||||||
| KO | K10707. | ||||||||||||
| OMA | VMSKSIS. | ||||||||||||
| OrthoDB | EOG4DNF5D. | ||||||||||||
| PhylomeDB | O95292. | ||||||||||||
Enzyme and pathway databases | |||||||||||||
| Reactome | REACT_111217. Metabolism. | ||||||||||||
Gene expression databases | |||||||||||||
| ArrayExpress | O95292. | ||||||||||||
| Bgee | O95292. | ||||||||||||
| CleanEx | HS_VAPB. | ||||||||||||
| Genevestigator | O95292. | ||||||||||||
| GermOnline | ENSG00000124164. Homo sapiens. | ||||||||||||
Family and domain databases | |||||||||||||
| Gene3D | 2.60.40.360. 1 hit. | ||||||||||||
| InterPro | IPR000535. Major_sperm. IPR008962. PapD-like. IPR016763. Vesicle-associated_membrane. [Graphical view] | ||||||||||||
| Pfam | PF00635. Motile_Sperm. 1 hit. [Graphical view] | ||||||||||||
| PIRSF | PIRSF019693. VAMP-associated. 1 hit. | ||||||||||||
| SUPFAM | SSF49354. PapD-like. 1 hit. | ||||||||||||
| PROSITE | PS50202. MSP. 1 hit. [Graphical view] | ||||||||||||
| ProtoNet | Search... | ||||||||||||
Other | |||||||||||||
| ChiTaRS | VAPB. human. | ||||||||||||
| EvolutionaryTrace | O95292. | ||||||||||||
| GenomeRNAi | 9217. | ||||||||||||
| NextBio | 34553. | ||||||||||||
| SOURCE | Search... | ||||||||||||
Entry information
| Entry name | VAPB_HUMAN | ||||||||
| Accession | Primary (citable) accession number: O95292 Secondary accession number(s): A2A2F2, O95293, Q9P0H0 | ||||||||
| Entry history |
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| Entry status | 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. | ||||||||
Relevant documents
| Human chromosome 20 Human chromosome 20: entries, gene names and cross-references to MIM |
| Human entries with polymorphisms or disease mutations List of human entries with polymorphisms or disease mutations |
| 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 |

Clusters with
