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Protein

Deubiquitinating protein VCIP135

Gene

Vcpip1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

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. Hydrolyzes 'Lys-11'- and 'Lys-48'-linked polyubiquitin chains.2 Publications

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).

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei215 – 2151By similarity
Active sitei218 – 2181NucleophileBy similarity
Active sitei353 – 3531By similarity

GO - Molecular functioni

  1. ubiquitin-specific protease activity Source: UniProtKB

GO - Biological processi

  1. endoplasmic reticulum membrane fusion Source: RGD
  2. Golgi organization Source: RGD
  3. Golgi reassembly Source: RGD
  4. mitotic nuclear division Source: RGD
  5. protein K11-linked deubiquitination Source: UniProtKB
  6. protein K48-linked deubiquitination Source: UniProtKB
  7. protein ubiquitination Source: UniProtKB
Complete GO annotation...

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
Gene namesi
Name:Vcpip1
Synonyms:Vcip135
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494 Componenti: Chromosome 5

Organism-specific databases

RGDi708520. Vcpip1.

Subcellular locationi

  1. Endoplasmic reticulum 1 Publication
  2. Golgi apparatusGolgi stack 1 Publication

  3. Note: Associated with Golgi stacks and endoplasmic reticulum.

GO - Cellular componenti

  1. endoplasmic reticulum Source: UniProtKB-SubCell
  2. Golgi stack Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Endoplasmic reticulum, Golgi apparatus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi218 – 2181C → A or S: Loss of deubiquitinating activity and ability to promote VCP-mediated Golgi membrane fusion. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 12211221Deubiquitinating protein VCIP135PRO_0000065771Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei407 – 4071N6-acetyllysineBy similarity
Modified residuei746 – 7461PhosphoserineBy similarity
Modified residuei762 – 7621PhosphothreonineBy similarity
Modified residuei993 – 9931PhosphoserineBy similarity
Modified residuei1197 – 11971PhosphoserineBy similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiQ8CF97.
PRIDEiQ8CF97.

PTM databases

PhosphoSiteiQ8CF97.

Expressioni

Tissue specificityi

Widely expressed.

Gene expression databases

GenevestigatoriQ8CF97.

Interactioni

Subunit structurei

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

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini207 – 360154OTUPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi4 – 2017Pro-richAdd
BLAST

Sequence similaritiesi

Contains 1 OTU domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiNOG262027.
GeneTreeiENSGT00390000002854.
HOGENOMiHOG000154813.
HOVERGENiHBG059748.
InParanoidiQ8CF97.
KOiK11861.
OMAiHKEELNM.
OrthoDBiEOG7FV3PG.
PhylomeDBiQ8CF97.
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.

Q8CF97-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSQPPPPPPL PPPPPPPEAP QTSSSLAAAA TPGGLSKRRD RRILSGSCPD
60 70 80 90 100
PKCQARLFFP ASGSVSIECT ECGQRHEQQQ LLGVEEVTDP DVVLHNLLRN
110 120 130 140 150
ALLGVTGAPK KNTELVKVMG LSNYHCKLLS PILARYGMDK QTGRAKLLRD
160 170 180 190 200
MNQGELFDCA LLGDRAFLIE PEHVNTVGYG KDRSGSLLYL HDTLEDIKRA
210 220 230 240 250
NKSQECLIPV HVDGDGHCLV HAVSRALVGR ELFWHALREN LKQHFQQHLA
260 270 280 290 300
RYQALFHDFI DAAEWEDIIN ECDPLFVPPE GVPLGLRNIH IFGLANVLHR
310 320 330 340 350
PIILLDSLSG MRSSGDYSAT FLPGLIPAEK CTGRDGHLNK PICIAWSSSG
360 370 380 390 400
RNHYIPLVGI KGAALPKLPM NLLPKAWGVP QDLIKKYIKL EEDGGCVIGG
410 420 430 440 450
DRSLQDKYLL RLVAAMEEVF MDKHGIHPSL VADVHQYFYR RTGVIGVQPE
460 470 480 490 500
EVTAAAKKAV MDNRLHKCLL CGALSELHVP PEWLAPGGKL YNLAKSTHGQ
510 520 530 540 550
LRPDKNYSFP LNNLVCSYDP VKDVLLPDYG LSNLTACNWC HGTSVRRVRG
560 570 580 590 600
DGSIVYLDGD RTNSRSTGGK CGCGFKHFWE GKEYDNLPEA FPITLEWGGR
610 620 630 640 650
VVRETVYWFQ YESDPSLNSN VYDVAMKLVT KHFPGEFGSE ILVQKVVHTI
660 670 680 690 700
LHQTAKKNPD DYTPVNIDGA HAQRIGDVQG QELESQLPTK IILTGQKTKT
710 720 730 740 750
LHKEELNMSK TERTIQQNIT EQASVMQKRK TEKLKQEQKG QPRTVSPSTI
760 770 780 790 800
RDGPSSAPAT PTKAPYSPTT SKEKKIRITT NDGRQSMVTL KSSTTFFELQ
810 820 830 840 850
ESIAREFNIP PYLQCIRYGF PPKELMPPQA GMEKEPVPLQ HGDRITIEIL
860 870 880 890 900
KGKAEGGPST AAHSAHTVRQ EEIAVTGKLS SKELQEQADK EMYSLCLLAT
910 920 930 940 950
LMGEDVWSYA KGLPHMFQQG GVFYNIMKKT MGMADGKHCT FPHLPGKTFV
960 970 980 990 1000
YNASEDRLEL CVDAAGHFPI GPDVEDLVKE AVSQVRAEAT TRSRESSPSH
1010 1020 1030 1040 1050
GLLKLGSGGV VKKKSEQLHN VTAFQGKGHS LGTASSNPHM DPRARETLAV
1060 1070 1080 1090 1100
RKHNTGTDFS NSSIKTEPPV FTAASSNSEL IRIAPGVVTM RDGRQIDPDV
1110 1120 1130 1140 1150
VEAQRKKLQE MVSSIQASMD KHLRDQSTEQ TPSDLSQRKV EAVSSSVRPG
1160 1170 1180 1190 1200
NLQTGLPESF SLTGGTENLN TETTDSRVAD VLGAAFATRS KAQKENSMEE
1210 1220
PEEMDSQDAE TTNTTEPMDH S
Length:1,221
Mass (Da):134,566
Last modified:November 23, 2004 - v2
Checksum:i23487E853AD9FD4B
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti7 – 71P → L in AAQ14350 (PubMed:15037600).Curated
Sequence conflicti158 – 1581D → N in AAQ14350 (PubMed:15037600).Curated
Sequence conflicti603 – 6031R → K in AAQ14350 (PubMed:15037600).Curated
Sequence conflicti652 – 6521H → L in AAQ14350 (PubMed:15037600).Curated
Sequence conflicti675 – 6751I → V in AAQ14350 (PubMed:15037600).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB045378 mRNA. Translation: BAC44841.2.
AF289091 mRNA. Translation: AAQ14350.1.
RefSeqiNP_789827.3. NM_176857.3.
UniGeneiRn.204326.

Genome annotation databases

EnsembliENSRNOT00000009136; ENSRNOP00000009136; ENSRNOG00000006980.
GeneIDi286761.
KEGGirno:286761.
UCSCiRGD:708520. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB045378 mRNA. Translation: BAC44841.2.
AF289091 mRNA. Translation: AAQ14350.1.
RefSeqiNP_789827.3. NM_176857.3.
UniGeneiRn.204326.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

MEROPSiC64.006.

PTM databases

PhosphoSiteiQ8CF97.

Proteomic databases

PaxDbiQ8CF97.
PRIDEiQ8CF97.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000009136; ENSRNOP00000009136; ENSRNOG00000006980.
GeneIDi286761.
KEGGirno:286761.
UCSCiRGD:708520. rat.

Organism-specific databases

CTDi80124.
RGDi708520. Vcpip1.

Phylogenomic databases

eggNOGiNOG262027.
GeneTreeiENSGT00390000002854.
HOGENOMiHOG000154813.
HOVERGENiHBG059748.
InParanoidiQ8CF97.
KOiK11861.
OMAiHKEELNM.
OrthoDBiEOG7FV3PG.
PhylomeDBiQ8CF97.
TreeFamiTF329469.

Miscellaneous databases

NextBioi624949.
PROiQ8CF97.

Gene expression databases

GenevestigatoriQ8CF97.

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]
ProtoNetiSearch...

Publicationsi

  1. "VCIP135, a novel essential factor for p97/p47-mediated membrane fusion, is required for Golgi and ER assembly in vivo."
    Uchiyama K., Jokitalo E., Kano F., Murata M., Zhang X., Canas B., Newman R., Rabouille C., Pappin D., Freemont P., Kondo H.
    J. Cell Biol. 159:855-866(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], PROTEIN SEQUENCE OF 870-878 AND 1095-1105, FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH VCP, IDENTIFICATION BY MASS SPECTROMETRY.
  2. Kondo H., Uchiyama K., Kondo H.
    Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: SEQUENCE REVISION TO 7.
  3. "VCIP135 acts as a deubiquitinating enzyme during p97-p47-mediated reassembly of mitotic Golgi fragments."
    Wang Y., Satoh A., Warren G., Meyer H.H.
    J. Cell Biol. 164:973-978(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, MUTAGENESIS OF CYS-218.
    Tissue: Liver.

Entry informationi

Entry nameiVCIP1_RAT
AccessioniPrimary (citable) accession number: Q8CF97
Secondary accession number(s): Q7TNK5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 16, 2004
Last sequence update: November 23, 2004
Last modified: April 1, 2015
This is version 86 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.