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Q96JH7

- VCIP1_HUMAN

UniProt

Q96JH7 - VCIP1_HUMAN

Protein

Deubiquitinating protein VCIP135

Gene

VCPIP1

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 110 (01 Oct 2014)
      Sequence version 2 (16 Feb 2004)
      Previous versions | rss
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    Functioni

    Acts as a deubiquitinating enzyme. Necessary for VCP-mediated reassembly of Golgi stacks after mitosis. May play a role in VCP-mediated formation of transitional endoplasmic reticulum (tER). Mediates dissociation of the ternary complex containing STX5A, NSFL1C and VCP By similarity. Hydrolyzes 'Lys-11'- and 'Lys-48'-linked polyubiquitin chains.By similarity1 Publication

    Catalytic activityi

    Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei216 – 2161By similarity
    Active sitei219 – 2191NucleophileBy similarity
    Active sitei354 – 3541By similarity

    GO - Molecular functioni

    1. ubiquitin-specific protease activity Source: UniProtKB

    GO - Biological processi

    1. endoplasmic reticulum membrane fusion Source: Ensembl
    2. Golgi reassembly Source: Ensembl
    3. mitotic nuclear division Source: Ensembl
    4. protein K11-linked deubiquitination Source: UniProtKB
    5. protein K48-linked deubiquitination Source: UniProtKB
    6. protein ubiquitination Source: UniProtKB

    Keywords - Molecular functioni

    Hydrolase, Protease, Thiol protease

    Keywords - Biological processi

    Ubl conjugation pathway

    Protein family/group databases

    MEROPSiC64.006.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Deubiquitinating protein VCIP135 (EC:3.4.19.12)
    Alternative name(s):
    Valosin-containing protein p97/p47 complex-interacting protein 1
    Valosin-containing protein p97/p47 complex-interacting protein p135
    Short name:
    VCP/p47 complex-interacting 135-kDa protein
    Gene namesi
    Name:VCPIP1
    Synonyms:KIAA1850, VCIP135
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 8

    Organism-specific databases

    HGNCiHGNC:30897. VCPIP1.

    Subcellular locationi

    Endoplasmic reticulum By similarity. Golgi apparatusGolgi stack By similarity
    Note: Associated with Golgi stacks and endoplasmic reticulum.By similarity

    GO - Cellular componenti

    1. cytoplasm Source: LIFEdb
    2. endoplasmic reticulum Source: UniProtKB-SubCell
    3. Golgi stack Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Endoplasmic reticulum, Golgi apparatus

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA142670629.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 12221222Deubiquitinating protein VCIP135PRO_0000065769Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei408 – 4081N6-acetyllysine1 Publication
    Modified residuei747 – 7471Phosphoserine1 Publication
    Modified residuei763 – 7631Phosphothreonine1 Publication
    Cross-linki870 – 870Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)1 Publication
    Modified residuei994 – 9941Phosphoserine1 Publication
    Modified residuei1198 – 11981Phosphoserine4 Publications

    Keywords - PTMi

    Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

    Proteomic databases

    MaxQBiQ96JH7.
    PaxDbiQ96JH7.
    PeptideAtlasiQ96JH7.
    PRIDEiQ96JH7.

    PTM databases

    PhosphoSiteiQ96JH7.

    Expressioni

    Gene expression databases

    BgeeiQ96JH7.
    CleanExiHS_VCPIP1.
    GenevestigatoriQ96JH7.

    Organism-specific databases

    HPAiHPA023932.

    Interactioni

    Subunit structurei

    Binds VCP and the ternary complex containing STX5A, NSFL1C and VCP.By similarity

    Protein-protein interaction databases

    BioGridi123125. 25 interactions.
    IntActiQ96JH7. 23 interactions.
    MINTiMINT-1197027.
    STRINGi9606.ENSP00000309031.

    Structurei

    3D structure databases

    ProteinModelPortaliQ96JH7.
    SMRiQ96JH7. Positions 191-371, 777-849.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini208 – 361154OTUPROSITE-ProRule annotationAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi4 – 2421Pro-richAdd
    BLAST

    Sequence similaritiesi

    Contains 1 OTU domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiNOG262027.
    HOGENOMiHOG000154813.
    HOVERGENiHBG059748.
    InParanoidiQ96JH7.
    KOiK11861.
    OMAiQTAKKNP.
    OrthoDBiEOG7FV3PG.
    PhylomeDBiQ96JH7.
    TreeFamiTF329469.

    Family and domain databases

    InterProiIPR003323. OTU.
    IPR029071. Ubiquitin-rel_dom.
    [Graphical view]
    PfamiPF02338. OTU. 1 hit.
    [Graphical view]
    SUPFAMiSSF54236. SSF54236. 1 hit.
    PROSITEiPS50802. OTU. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q96JH7-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSQPPPPPPP LPPPPPPPEA PQTPSSLASA AASGGLLKRR DRRILSGSCP     50
    DPKCQARLFF PASGSVSIEC TECGQRHEQQ QLLGVEEVTD PDVVLHNLLR 100
    NALLGVTGAP KKNTELVKVM GLSNYHCKLL SPILARYGMD KQTGRAKLLR 150
    DMNQGELFDC ALLGDRAFLI EPEHVNTVGY GKDRSGSLLY LHDTLEDIKR 200
    ANKSQECLIP VHVDGDGHCL VHAVSRALVG RELFWHALRE NLKQHFQQHL 250
    ARYQALFHDF IDAAEWEDII NECDPLFVPP EGVPLGLRNI HIFGLANVLH 300
    RPIILLDSLS GMRSSGDYSA TFLPGLIPAE KCTGKDGHLN KPICIAWSSS 350
    GRNHYIPLVG IKGAALPKLP MNLLPKAWGV PQDLIKKYIK LEEDGGCVIG 400
    GDRSLQDKYL LRLVAAMEEV FMDKHGIHPS LVADVHQYFY RRTGVIGVQP 450
    EEVTAAAKKA VMDNRLHKCL LCGALSELHV PPEWLAPGGK LYNLAKSTHG 500
    QLRTDKNYSF PLNNLVCSYD SVKDVLVPDY GMSNLTACNW CHGTSVRKVR 550
    GDGSIVYLDG DRTNSRSTGG KCGCGFKHFW DGKEYDNLPE AFPITLEWGG 600
    RVVRETVYWF QYESDSSLNS NVYDVAMKLV TKHFPGEFGS EILVQKVVHT 650
    ILHQTAKKNP DDYTPVNIDG AHAQRVGDVQ GQESESQLPT KIILTGQKTK 700
    TLHKEELNMS KTERTIQQNI TEQASVMQKR KTEKLKQEQK GQPRTVSPST 750
    IRDGPSSAPA TPTKAPYSPT TSKEKKIRIT TNDGRQSMVT LKSSTTFFEL 800
    QESIAREFNI PPYLQCIRYG FPPKELMPPQ AGMEKEPVPL QHGDRITIEI 850
    LKSKAEGGQS AAAHSAHTVK QEDIAVTGKL SSKELQEQAE KEMYSLCLLA 900
    TLMGEDVWSY AKGLPHMFQQ GGVFYSIMKK TMGMADGKHC TFPHLPGKTF 950
    VYNASEDRLE LCVDAAGHFP IGPDVEDLVK EAVSQVRAEA TTRSRESSPS 1000
    HGLLKLGSGG VVKKKSEQLH NVTAFQGKGH SLGTASGNPH LDPRARETSV 1050
    VRKHNTGTDF SNSSTKTEPS VFTASSSNSE LIRIAPGVVT MRDGRQLDPD 1100
    LVEAQRKKLQ EMVSSIQASM DRHLRDQSTE QSPSDLPQRK TEVVSSSAKS 1150
    GSLQTGLPES FPLTGGTENL NTETTDGCVA DALGAAFATR SKAQRGNSVE 1200
    ELEEMDSQDA EMTNTTEPMD HS 1222
    Length:1,222
    Mass (Da):134,321
    Last modified:February 16, 2004 - v2
    Checksum:i5CE99D723386782D
    GO

    Sequence cautioni

    The sequence BAB15552.1 differs from that shown. Reason: Frameshift at positions 1065 and 1110.
    The sequence BAB47479.1 differs from that shown. Reason: Erroneous initiation.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti169 – 1691L → P in CAD89944. (PubMed:17974005)Curated
    Sequence conflicti437 – 4371Q → R in CAD89944. (PubMed:17974005)Curated
    Sequence conflicti811 – 8111P → F in AAH49379. (PubMed:15489334)Curated
    Sequence conflicti927 – 9271Missing(PubMed:15489334)Curated
    Sequence conflicti988 – 9881A → S in AAH49379. (PubMed:15489334)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB058753 mRNA. Translation: BAB47479.1. Different initiation.
    AL834476 mRNA. Translation: CAD39135.1.
    AL832606 mRNA. Translation: CAD89944.1.
    BC049379 mRNA. Translation: AAH49379.1.
    BC094799 mRNA. Translation: AAH94799.1.
    AK026785 mRNA. Translation: BAB15552.1. Frameshift.
    CCDSiCCDS6192.1.
    RefSeqiNP_079330.2. NM_025054.4.
    UniGeneiHs.632066.

    Genome annotation databases

    EnsembliENST00000310421; ENSP00000309031; ENSG00000175073.
    GeneIDi80124.
    KEGGihsa:80124.
    UCSCiuc003xwn.3. human.

    Polymorphism databases

    DMDMi42560002.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB058753 mRNA. Translation: BAB47479.1 . Different initiation.
    AL834476 mRNA. Translation: CAD39135.1 .
    AL832606 mRNA. Translation: CAD89944.1 .
    BC049379 mRNA. Translation: AAH49379.1 .
    BC094799 mRNA. Translation: AAH94799.1 .
    AK026785 mRNA. Translation: BAB15552.1 . Frameshift.
    CCDSi CCDS6192.1.
    RefSeqi NP_079330.2. NM_025054.4.
    UniGenei Hs.632066.

    3D structure databases

    ProteinModelPortali Q96JH7.
    SMRi Q96JH7. Positions 191-371, 777-849.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 123125. 25 interactions.
    IntActi Q96JH7. 23 interactions.
    MINTi MINT-1197027.
    STRINGi 9606.ENSP00000309031.

    Protein family/group databases

    MEROPSi C64.006.

    PTM databases

    PhosphoSitei Q96JH7.

    Polymorphism databases

    DMDMi 42560002.

    Proteomic databases

    MaxQBi Q96JH7.
    PaxDbi Q96JH7.
    PeptideAtlasi Q96JH7.
    PRIDEi Q96JH7.

    Protocols and materials databases

    DNASUi 80124.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000310421 ; ENSP00000309031 ; ENSG00000175073 .
    GeneIDi 80124.
    KEGGi hsa:80124.
    UCSCi uc003xwn.3. human.

    Organism-specific databases

    CTDi 80124.
    GeneCardsi GC08M067540.
    HGNCi HGNC:30897. VCPIP1.
    HPAi HPA023932.
    MIMi 611745. gene.
    neXtProti NX_Q96JH7.
    PharmGKBi PA142670629.
    HUGEi Search...
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG262027.
    HOGENOMi HOG000154813.
    HOVERGENi HBG059748.
    InParanoidi Q96JH7.
    KOi K11861.
    OMAi QTAKKNP.
    OrthoDBi EOG7FV3PG.
    PhylomeDBi Q96JH7.
    TreeFami TF329469.

    Miscellaneous databases

    GeneWikii VCPIP1.
    GenomeRNAii 80124.
    NextBioi 70360.
    PROi Q96JH7.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q96JH7.
    CleanExi HS_VCPIP1.
    Genevestigatori Q96JH7.

    Family and domain databases

    InterProi IPR003323. OTU.
    IPR029071. Ubiquitin-rel_dom.
    [Graphical view ]
    Pfami PF02338. OTU. 1 hit.
    [Graphical view ]
    SUPFAMi SSF54236. SSF54236. 1 hit.
    PROSITEi PS50802. OTU. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Prediction of the coding sequences of unidentified human genes. XX. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro."
      Nagase T., Nakayama M., Nakajima D., Kikuno R., Ohara O.
      DNA Res. 8:85-95(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Brain.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Melanoma.
    3. "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].
      Tissue: Testis and Uterus.
    4. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
      Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
      , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
      Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 586-1184.
      Tissue: Lung.
    5. "Tryptic digestion of ubiquitin standards reveals an improved strategy for identifying ubiquitinated proteins by mass spectrometry."
      Denis N.J., Vasilescu J., Lambert J.-P., Smith J.C., Figeys D.
      Proteomics 7:868-874(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: UBIQUITINATION [LARGE SCALE ANALYSIS] AT LYS-870.
      Tissue: Mammary cancer.
    6. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-747; THR-763; SER-994 AND SER-1198, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Tissue: Cervix carcinoma.
    7. "Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions."
      Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K.
      Sci. Signal. 2:RA46-RA46(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-1198, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Tissue: Leukemic T-cell.
    8. "Lysine acetylation targets protein complexes and co-regulates major cellular functions."
      Choudhary C., Kumar C., Gnad F., Nielsen M.L., Rehman M., Walther T.C., Olsen J.V., Mann M.
      Science 325:834-840(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-408, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    9. "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 SER-1198, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Tissue: Cervix carcinoma.
    10. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    11. "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: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-1198, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    12. "OTU deubiquitinases reveal mechanisms of linkage specificity and enable ubiquitin chain restriction analysis."
      Mevissen T.E., Hospenthal M.K., Geurink P.P., Elliott P.R., Akutsu M., Arnaudo N., Ekkebus R., Kulathu Y., Wauer T., El Oualid F., Freund S.M., Ovaa H., Komander D.
      Cell 154:169-184(2013) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, CATALYTIC ACTIVITY.

    Entry informationi

    Entry nameiVCIP1_HUMAN
    AccessioniPrimary (citable) accession number: Q96JH7
    Secondary accession number(s): Q504T4
    , Q86T93, Q86W01, Q8N3A9, Q9H5R8
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 16, 2004
    Last sequence update: February 16, 2004
    Last modified: October 1, 2014
    This is version 110 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny 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

    Complete proteome, Reference proteome

    Documents

    1. Human chromosome 8
      Human chromosome 8: entries, gene names and cross-references to MIM
    2. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3