CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-023858
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 WD repeat domain phosphoinositide-interacting protein 2 
Protein Synonyms/Alias
 WIPI-2; WIPI49-like protein 2 
Gene Name
 WIPI2 
Gene Synonyms/Alias
 CGI-50 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
28NQDNTEVKGASRAAGubiquitination[1]
146IHNIRDMKVLHTIREubiquitination[1]
216AFDASGTKLATASEKubiquitination[1, 2, 3]
223KLATASEKGTVIRVFacetylation[4, 5]
223KLATASEKGTVIRVFubiquitination[1, 2]
237FSIPEGQKLFEFRRGubiquitination[1, 2, 3, 5]
283KLETVKEKPPEEPTTubiquitination[1]
331RLPFCGHKNICSLATubiquitination[1]
341CSLATIQKIPRLLVGubiquitination[1, 3, 5, 6]
371GGECALMKQHRLDGSubiquitination[1, 3]
Reference
 [1] 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]
 [2] 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]
 [3] Global identification of modular cullin-RING ligase substrates.
 Emanuele MJ, Elia AE, Xu Q, Thoma CR, Izhar L, Leng Y, Guo A, Chen YN, Rush J, Hsu PW, Yen HC, Elledge SJ.
 Cell. 2011 Oct 14;147(2):459-74. [PMID: 21963094]
 [4] Proteomic investigations of lysine acetylation identify diverse substrates of mitochondrial deacetylase sirt3.
 Sol EM, Wagner SA, Weinert BT, Kumar A, Kim HS, Deng CX, Choudhary C.
 PLoS One. 2012;7(12):e50545. [PMID: 23236377]
 [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]
 [6] Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition.
 Udeshi ND, Mani DR, Eisenhaure T, Mertins P, Jaffe JD, Clauser KR, Hacohen N, Carr SA.
 Mol Cell Proteomics. 2012 May;11(5):148-59. [PMID: 22505724] 
Functional Description
 Probable early component of the autophagy machinery being involved in formation of preautophagosomal structures and their maturation into mature phagosomes in response to PtdIns3P. May bind PtdIns3P. 
Sequence Annotation
 REPEAT 200 240 WD 1.
 REPEAT 246 285 WD 2.
 REPEAT 329 367 WD 3.
 MOD_RES 412 412 Phosphoserine (By similarity).
 MOD_RES 413 413 Phosphoserine.  
Keyword
 Alternative splicing; Autophagy; Complete proteome; Membrane; Phosphoprotein; Reference proteome; Repeat; WD repeat. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 454 AA 
Protein Sequence
MNLASQSGEA GAGQLLFANF NQDNTEVKGA SRAAGLGRRA VVWSLAVGSK SGYKFFSLSS 60
VDKLEQIYEC TDTEDVCIVE RLFSSSLVAI VSLKAPRKLK VCHFKKGTEI CNYSYSNTIL 120
AVKLNRQRLI VCLEESLYIH NIRDMKVLHT IRETPPNPAG LCALSINNDN CYLAYPGSAT 180
IGEVQVFDTI NLRAANMIPA HDSPLAALAF DASGTKLATA SEKGTVIRVF SIPEGQKLFE 240
FRRGVKRCVS ICSLAFSMDG MFLSASSNTE TVHIFKLETV KEKPPEEPTT WTGYFGKVLM 300
ASTSYLPSQV TEMFNQGRAF ATVRLPFCGH KNICSLATIQ KIPRLLVGAA DGYLYMYNLD 360
PQEGGECALM KQHRLDGSLE TTNEILDSAS HDCPLVTQTY GAAAGKGTYV PSSPTRLAYT 420
DDLGAVGGAC LEDEASALRL DEDSEHPPMI LRTD 454 
Gene Ontology
 GO:0000421; C:autophagic vacuole membrane; IBA:RefGenome.
 GO:0005829; C:cytosol; IDA:UniProtKB.
 GO:0005634; C:nucleus; IDA:HPA.
 GO:0034045; C:pre-autophagosomal structure membrane; IDA:UniProtKB.
 GO:0043234; C:protein complex; IDA:LIFEdb.
 GO:0080025; F:phosphatidylinositol-3,5-bisphosphate binding; IDA:UniProtKB.
 GO:0032266; F:phosphatidylinositol-3-phosphate binding; IDA:UniProtKB.
 GO:0000045; P:autophagic vacuole assembly; IMP:UniProtKB. 
Interpro
 IPR015943; WD40/YVTN_repeat-like_dom.
 IPR001680; WD40_repeat.
 IPR017986; WD40_repeat_dom. 
Pfam
 PF00400; WD40 
SMART
 SM00320; WD40 
PROSITE
 PS00678; WD_REPEATS_1
 PS50082; WD_REPEATS_2
 PS50294; WD_REPEATS_REGION 
PRINTS