CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-021291
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Vacuolar protein sorting-associated protein 11 homolog 
Protein Synonyms/Alias
 hVPS11; RING finger protein 108 
Gene Name
 VPS11 
Gene Synonyms/Alias
 RNF108; PP3476 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
19FFDKELVKEPLSNDGubiquitination[1]
84LTGFQAYKLRVTHLYubiquitination[2, 3]
120VKIWNLEKRDGGNPLubiquitination[4]
184SKTQILHKGNYPVTGubiquitination[4]
417QYIRTIGKLEPSYVIubiquitination[4, 5]
426EPSYVIRKFLDAQRIubiquitination[4]
475SKLEEFIKKKSESEVubiquitination[4]
565EQTTQLLKGLCTDYRubiquitination[4]
638LQNWAHEKDPQVKEKubiquitination[4]
866TCLPENRKVMDMIRAubiquitination[4]
909FGRGVFNKLTLLTDPubiquitination[2, 3]
Reference
 [1] Systematic and quantitative assessment of the ubiquitin-modified proteome.
 Kim W, Bennett EJ, Huttlin EL, Guo A, Li J, Possemato A, Sowa ME, Rad R, Rush J, Comb MJ, Harper JW, Gygi SP.
 Mol Cell. 2011 Oct 21;44(2):325-40. [PMID: 21906983]
 [2] A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles.
 Wagner SA, Beli P, Weinert BT, Nielsen ML, Cox J, Mann M, Choudhary C.
 Mol Cell Proteomics. 2011 Oct;10(10):M111.013284. [PMID: 21890473]
 [3] hCKSAAP_UbSite: improved prediction of human ubiquitination sites by exploiting amino acid pattern and properties.
 Chen Z, Zhou Y, Song J, Zhang Z.
 Biochim Biophys Acta. 2013 Aug;1834(8):1461-7. [PMID: 23603789]
 [4] Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.
 Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA.
 Mol Cell Proteomics. 2013 Mar;12(3):825-31. [PMID: 23266961]
 [5] Integrated proteomic analysis of post-translational modifications by serial enrichment.
 Mertins P, Qiao JW, Patel J, Udeshi ND, Clauser KR, Mani DR, Burgess MW, Gillette MA, Jaffe JD, Carr SA.
 Nat Methods. 2013 Jul;10(7):634-7. [PMID: 23749302
Functional Description
 May play a role in vesicle-mediated protein trafficking to lysosomal compartments and in membrane docking/fusion reactions of late endosomes/lysosomes. 
Sequence Annotation
 REPEAT 411 561 CHCR 1.
 REPEAT 572 736 CHCR 2.
 ZN_FING 822 861 RING-type.  
Keyword
 Coiled coil; Complete proteome; Cytoplasmic vesicle; Endosome; Lysosome; Membrane; Metal-binding; Nucleotide-binding; Polymorphism; Protein transport; Reference proteome; Repeat; Transport; Zinc; Zinc-finger. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 941 AA 
Protein Sequence
MAAYLQWRRF VFFDKELVKE PLSNDGAAPG ATPASGSAAS KFLCLPPGIT VCDSGRGSLV 60
FGDMEGQIWF LPRSLQLTGF QAYKLRVTHL YQLKQHNILA SVGEDEEGIN PLVKIWNLEK 120
RDGGNPLCTR IFPAIPGTEP TVVSCLTVHE NLNFMAIGFT DGSVTLNKGD ITRDRHSKTQ 180
ILHKGNYPVT GLAFRQAGKT THLFVVTTEN VQSYIVSGKD YPRVELDTHG CGLRCSALSD 240
PSQDLQFIVA GDECVYLYQP DERGPCFAFE GHKLIAHWFR GYLIIVSRDR KVSPKSEFTS 300
RDSQSSDKQI LNIYDLCNKF IAYSTVFEDV VDVLAEWGSL YVLTRDGRVH ALQEKDTQTK 360
LEMLFKKNLF EMAINLAKSQ HLDSDGLAQI FMQYGDHLYS KGNHDGAVQQ YIRTIGKLEP 420
SYVIRKFLDA QRIHNLTAYL QTLHRQSLAN ADHTTLLLNC YTKLKDSSKL EEFIKKKSES 480
EVHFDVETAI KVLRQAGYYS HALYLAENHA HHEWYLKIQL EDIKNYQEAL RYIGKLPFEQ 540
AESNMKRYGK ILMHHIPEQT TQLLKGLCTD YRPSLEGRSD REAPGCRANS EEFIPIFANN 600
PRELKAFLEH MSEVQPDSPQ GIYDTLLELR LQNWAHEKDP QVKEKLHAEA ISLLKSGRFC 660
DVFDKALVLC QMHDFQDGVL YLYEQGKLFQ QIMHYHMQHE QYRQVISVCE RHGEQDPSLW 720
EQALSYFARK EEDCKEYVAA VLKHIENKNL MPPLLVVQTL AHNSTATLSV IRDYLVQKLQ 780
KQSQQIAQDE LRVRRYREET TRIRQEIQEL KASPKIFQKT KCSICNSALE LPSVHFLCGH 840
SFHQHCFESY SESDADCPTC LPENRKVMDM IRAQEQKRDL HDQFQHQLRC SNDSFSVIAD 900
YFGRGVFNKL TLLTDPPTAR LTSSLEAGLQ RDLLMHSRRG T 941 
Gene Ontology
 GO:0030139; C:endocytic vesicle; IDA:UniProtKB.
 GO:0005768; C:endosome; IDA:UniProtKB.
 GO:0030897; C:HOPS complex; IDA:UniProtKB.
 GO:0031902; C:late endosome membrane; IEA:UniProtKB-SubCell.
 GO:0005765; C:lysosomal membrane; IEA:UniProtKB-SubCell.
 GO:0000166; F:nucleotide binding; IEA:UniProtKB-KW.
 GO:0008270; F:zinc ion binding; IEA:InterPro.
 GO:0006886; P:intracellular protein transport; IEA:InterPro.
 GO:0016192; P:vesicle-mediated transport; IEA:InterPro. 
Interpro
 IPR000547; Clathrin_H-chain/VPS_repeat.
 IPR016528; VPS11.
 IPR024763; VPS11_C.
 IPR015943; WD40/YVTN_repeat-like_dom.
 IPR017986; WD40_repeat_dom.
 IPR001841; Znf_RING.
 IPR013083; Znf_RING/FYVE/PHD. 
Pfam
 PF00637; Clathrin
 PF12451; VPS11_C 
SMART
 SM00184; RING 
PROSITE
 PS50236; CHCR
 PS00518; ZF_RING_1
 PS50089; ZF_RING_2 
PRINTS