Q96JH7 (VCIP1_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Deubiquitinating protein VCIP135
EC=3.4.22.-

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 names

Name:	VCPIP1
Synonyms:	KIAA1850, VCIP135

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	1222 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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.
Subunit structure	Binds VCP and the ternary complex containing STX5A, NSFL1C and VCP By similarity.
Subcellular location	Endoplasmic reticulum By similarity. Golgi apparatus › Golgi stack By similarity. Note: Associated with Golgi stacks and endoplasmic reticulum By similarity.
Sequence similarities	Contains 1 OTU domain.
Sequence caution	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.

Ontologies

Keywords
Biological process	Ubl conjugation pathway
Cellular component	Endoplasmic reticulum Golgi apparatus
Molecular function	Hydrolase Protease Thiol protease
PTM	Acetylation Isopeptide bond Phosphoprotein Ubl conjugation
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	Golgi reassembly Inferred from electronic annotation. Source: Compara endoplasmic reticulum membrane fusion Inferred from electronic annotation. Source: Compara mitosis Inferred from electronic annotation. Source: Compara protein ubiquitination Inferred from sequence or structural similarity. Source: UniProtKB proteolysis Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	Golgi stack Inferred from electronic annotation. Source: UniProtKB-SubCell cytoplasm Inferred from direct assay. Source: LIFEdb endoplasmic reticulum Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	ubiquitin-specific protease activity Inferred from sequence or structural similarity. Source: UniProtKB
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1222	1222	Deubiquitinating protein VCIP135		PRO_0000065769
Regions
	Domain	208 – 361	154	OTU
	Compositional bias	4 – 24	21	Pro-rich
Amino acid modifications
	Modified residue	408	1	N6-acetyllysine Ref.8
	Modified residue	747	1	Phosphoserine Ref.6
	Modified residue	763	1	Phosphothreonine Ref.6
	Modified residue	994	1	Phosphoserine Ref.6
	Modified residue	1198	1	Phosphoserine Ref.6 Ref.7 Ref.9 Ref.11
	Cross-link	870		Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) Ref.5
Experimental info
	Sequence conflict	169	1	L → P in CAD89944. Ref.2
	Sequence conflict	437	1	Q → R in CAD89944. Ref.2
	Sequence conflict	811	1	P → F in AAH49379. Ref.3
	Sequence conflict	927	1	Missing Ref.3
	Sequence conflict	988	1	A → S in AAH49379. Ref.3

Sequences

	Sequence		Length	Mass (Da)
	Q96JH7 [UniParc]. Last modified February 16, 2004. Version 2. Checksum: 5CE99D723386782D	FASTA	1,222	134,321
	10 20 30 40 50 60 MSQPPPPPPP LPPPPPPPEA PQTPSSLASA AASGGLLKRR DRRILSGSCP DPKCQARLFF 70 80 90 100 110 120 PASGSVSIEC TECGQRHEQQ QLLGVEEVTD PDVVLHNLLR NALLGVTGAP KKNTELVKVM 130 140 150 160 170 180 GLSNYHCKLL SPILARYGMD KQTGRAKLLR DMNQGELFDC ALLGDRAFLI EPEHVNTVGY 190 200 210 220 230 240 GKDRSGSLLY LHDTLEDIKR ANKSQECLIP VHVDGDGHCL VHAVSRALVG RELFWHALRE 250 260 270 280 290 300 NLKQHFQQHL ARYQALFHDF IDAAEWEDII NECDPLFVPP EGVPLGLRNI HIFGLANVLH 310 320 330 340 350 360 RPIILLDSLS GMRSSGDYSA TFLPGLIPAE KCTGKDGHLN KPICIAWSSS GRNHYIPLVG 370 380 390 400 410 420 IKGAALPKLP MNLLPKAWGV PQDLIKKYIK LEEDGGCVIG GDRSLQDKYL LRLVAAMEEV 430 440 450 460 470 480 FMDKHGIHPS LVADVHQYFY RRTGVIGVQP EEVTAAAKKA VMDNRLHKCL LCGALSELHV 490 500 510 520 530 540 PPEWLAPGGK LYNLAKSTHG QLRTDKNYSF PLNNLVCSYD SVKDVLVPDY GMSNLTACNW 550 560 570 580 590 600 CHGTSVRKVR GDGSIVYLDG DRTNSRSTGG KCGCGFKHFW DGKEYDNLPE AFPITLEWGG 610 620 630 640 650 660 RVVRETVYWF QYESDSSLNS NVYDVAMKLV TKHFPGEFGS EILVQKVVHT ILHQTAKKNP 670 680 690 700 710 720 DDYTPVNIDG AHAQRVGDVQ GQESESQLPT KIILTGQKTK TLHKEELNMS KTERTIQQNI 730 740 750 760 770 780 TEQASVMQKR KTEKLKQEQK GQPRTVSPST IRDGPSSAPA TPTKAPYSPT TSKEKKIRIT 790 800 810 820 830 840 TNDGRQSMVT LKSSTTFFEL QESIAREFNI PPYLQCIRYG FPPKELMPPQ AGMEKEPVPL 850 860 870 880 890 900 QHGDRITIEI LKSKAEGGQS AAAHSAHTVK QEDIAVTGKL SSKELQEQAE KEMYSLCLLA 910 920 930 940 950 960 TLMGEDVWSY AKGLPHMFQQ GGVFYSIMKK TMGMADGKHC TFPHLPGKTF VYNASEDRLE 970 980 990 1000 1010 1020 LCVDAAGHFP IGPDVEDLVK EAVSQVRAEA TTRSRESSPS HGLLKLGSGG VVKKKSEQLH 1030 1040 1050 1060 1070 1080 NVTAFQGKGH SLGTASGNPH LDPRARETSV VRKHNTGTDF SNSSTKTEPS VFTASSSNSE 1090 1100 1110 1120 1130 1140 LIRIAPGVVT MRDGRQLDPD LVEAQRKKLQ EMVSSIQASM DRHLRDQSTE QSPSDLPQRK 1150 1160 1170 1180 1190 1200 TEVVSSSAKS GSLQTGLPES FPLTGGTENL NTETTDGCVA DALGAAFATR SKAQRGNSVE 1210 1220 ELEEMDSQDA EMTNTTEPMD HS

References

[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]	"The full-ORF clone resource of the German cDNA consortium." Bechtel S., Rosenfelder H., Duda A., Schmidt C.P., Ernst U., Wellenreuther R., Mehrle A., Schuster C., Bahr A., Bloecker H., Heubner D., Hoerlein A., Michel G., Wedler H., Koehrer K., Ottenwaelder B., Poustka A., Wiemann S., Schupp I. BMC Genomics 8:399-399(2007) [PubMed] [Europe PMC] [Abstract] 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, MASS SPECTROMETRY. Tissue: Mammary cancer.
[6]	"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 SER-747; THR-763; SER-994 AND SER-1198, MASS SPECTROMETRY. 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, MASS SPECTROMETRY. 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, MASS SPECTROMETRY.
[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, MASS SPECTROMETRY. Tissue: Cervix carcinoma.
[10]	"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].
[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, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	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.
IPI	IPI00064162.
RefSeq	NP_079330.2. NM_025054.4.
UniGene	Hs.632066.
3D structure databases
ProteinModelPortal	Q96JH7.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q96JH7. 22 interactions.
MINT	MINT-1197027.
STRING	9606.ENSP00000309031.
Protein family/group databases
MEROPS	C64.006.
PTM databases
PhosphoSite	Q96JH7.
Polymorphism databases
DMDM	42560002.
Proteomic databases
PaxDb	Q96JH7.
PeptideAtlas	Q96JH7.
PRIDE	Q96JH7.
Protocols and materials databases
DNASU	80124.
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENST00000310421; ENSP00000309031; ENSG00000175073.
GeneID	80124.
KEGG	hsa:80124.
UCSC	uc003xwn.3. human.
Organism-specific databases
CTD	80124.
GeneCards	GC08M067540.
HGNC	HGNC:30897. VCPIP1.
HPA	HPA023932.
MIM	611745. gene.
neXtProt	NX_Q96JH7.
PharmGKB	PA142670629.
HUGE	Search...
GenAtlas	Search...
Phylogenomic databases
eggNOG	NOG262027.
HOGENOM	HOG000154813.
HOVERGEN	HBG059748.
InParanoid	Q96JH7.
KO	K11861.
OMA	QTAKKNP.
OrthoDB	EOG4RBQHR.
PhylomeDB	Q96JH7.
Gene expression databases
Bgee	Q96JH7.
CleanEx	HS_VCPIP1.
Genevestigator	Q96JH7.
GermOnline	ENSG00000175073. Homo sapiens.
Family and domain databases
InterPro	IPR003323. OTU. [Graphical view]
Pfam	PF02338. OTU. 1 hit. [Graphical view]
PROSITE	PS50802. OTU. 1 hit. [Graphical view]
ProtoNet	Search...
Other
GenomeRNAi	80124.
NextBio	70360.
SOURCE	Search...

Entry information

Entry name

VCIP1_HUMAN

Accession

Primary (citable) accession number: Q96JH7
Secondary accession number(s): Q504T4 , Q86T93, Q86W01, Q8N3A9, Q9H5R8

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 16, 2004
Last sequence update:	February 16, 2004
Last modified:	May 1, 2013
This is version 98 of the entry and version 2 of the sequence. [Complete history]

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.