CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-014033
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Vacuolar protein sorting-associated protein 13D 
Protein Synonyms/Alias
  
Gene Name
 VPS13D 
Gene Synonyms/Alias
 KIAA0453 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
705GDFIEESKRWTVRLDubiquitination[1]
2988VSPVSVDKVGTFFRYubiquitination[1]
3000FRYAAPDKNSSSSTIubiquitination[1]
3523FRIDNFSKVPVVFTQacetylation[2]
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] Lysine acetylation targets protein complexes and co-regulates major cellular functions.
 Choudhary C, Kumar C, Gnad F, Nielsen ML, Rehman M, Walther TC, Olsen JV, Mann M.
 Science. 2009 Aug 14;325(5942):834-40. [PMID: 19608861
Functional Description
  
Sequence Annotation
 DOMAIN 2633 2676 UBA.
 MOD_RES 1042 1042 Phosphoserine.
 MOD_RES 1761 1761 Phosphothreonine.
 MOD_RES 2435 2435 Phosphoserine.
 MOD_RES 3523 3523 N6-acetyllysine.  
Keyword
 Acetylation; Alternative splicing; Complete proteome; Phosphoprotein; Polymorphism; Reference proteome. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 4387 AA 
Protein Sequence
MLEGLVAWVL NTYLGKYVNN LNTDQLSVAL LKGAVELENL PLKKDALKEL ELPFEVKAGF 60
IGKVTLQIPF YRPHVDPWVI SISSLHLIGA PEKIQDFNDE KEKLLERERK KALLQALEEK 120
WKNDRQQKGE SYWYSVTASV VTRIVENIEL KIQDVHLRFE DGVTNPSHPF AFGICIKNVS 180
MQNAVNEPVQ KLMRKKQLDV AEFSIYWDVD CTLLGDLPQM ELQEAMARSM ESRSHHYVLE 240
PVFASALLKR NCSKKPLRSR HSPRIDCDIQ LETIPLKLSQ LQYRQIMEFL KELERKERQV 300
KFRRWKPKVA ISKNCREWWY FALNANLYEI REQRKRCTWD FMLHRARDAV SYTDKYFNKL 360
KGGLLSTDDK EEMCRIEEEQ SFEELKILRE LVHDRFHKQE ELAESLREPQ FDSPGACPGA 420
PEPGGGSGML QYLQSWFPGW GGWYGQQTPE GNVVEGLSAE QQEQWIPEEI LGTEEFFDPT 480
ADASCMNTYT KRDHVFAKLN LQLQRGTVTL LHKEQGTPQM NESAFMQLEF SDVKLLAESL 540
PRRNSSLLSV RLGGLFLRDL ATEGTMFPLL VFPNPQKEVG RVSQSFGLQT TSADRSDHYP 600
AADPDGPVFE MLYERNPAHS HFERRLNVST RPLNIIYNPQ AIKKVADFFY KGKVHTSGFG 660
YQSELELRVA EAARRQYNKL KMQTKAEIRQ TLDRLLVGDF IEESKRWTVR LDISAPQVIF 720
PDDFKFKNPV LVVVDLGRML LTNTQDNSRR KSRDGSASEE TQFSDDEYKT PLATPPNTPP 780
PESSSSNGEK TPPFSGVEFS EEQLQAHLMS TKMYERYSLS FMDLQIMVGR VKDNWKHVQD 840
IDVGPTHVVE KFNVHLQLER RLIYTSDPKY PGAVLSGNLP DLKIHINEDK ISALKNCFAL 900
LTTPEMKTSD TQIKEKIFPQ EEQRGSLQDS VMNLTQSIVL LEQHTREVLV ESQLLLAEFK 960
VNCMQLGVES NGRYISVLKV FGTNAHFVKR PYDAEVSLTV HGLLLVDTMQ TYGADFDLLM 1020
ASHKNLSFDI PTGSLRDSRA QSPVSGPNVA HLTDGATLND RSATSVSLDK ILTKEQESLI 1080
KLEYQFVSSE CPSMNLDSTL QVISLQVNNL DIILNPETIV ELIGFLQKSF PKEKDDLSPQ 1140
PLMTDFERSF REQGTYQSTY EQNTEVAVEI HRLNLLLLRT VGMANREKYG RKIATASIGG 1200
TKVNVSMGST FDMNGSLGCL QLMDLTQDNV KNQYVVSIGN SVGYENIISD IGYFESVFVR 1260
MEDAALTEAL SFTFVERSKQ ECFLNLKMAS LHYNHSAKFL KELTLSMDEL EENFRGMLKS 1320
AATKVTTVLA TKTAEYSEMV SLFETPRKTR EPFILEENEI YGFDLASSHL DTVKLILNIN 1380
IESPVVSIPR KPGSPELLVG HLGQIFIQNF VAGDDESRSD RLQVEIKDIK LYSLNCTQLA 1440
GREAVGSEGS RMFCPPSGSG SANSQEEAHF TRHDFFESLH RGQAFHILNN TTIQFKLEKI 1500
PIERESELTF SLSPDDLGTS SIMKIEGKFV NPVQVVLAKH VYEQVLQTLD NLVYSEDLNK 1560
YPASATSSPC PDSPLPPLST CGESSVERKE NGLFSHSSLS NTSQKSLSVK EVKSFTQIQA 1620
TFCISELQVQ LSGDLTLGAQ GLVSLKFQDF EVEFSKDHPQ TLSIQIALHS LLMEDLLEKN 1680
PDSKYKNLMV SRGAPKPSSL AQKEYLSQSC PSVSNVEYPD MPRSLPSHME EAPNVFQLYQ 1740
RPTSASRKKQ KEVQDKDYPL TPPPSPTVDE PKILVGKSKF DDSLVHINIF LVDKKHPEFS 1800
SSYNRVNRSI DVDFNCLDVL ITLQTWVVIL DFFGIGSTAD NHAMRLPPEG ILHNVKLEPH 1860
ASMESGLQDP VNTKLDLKVH SLSLVLNKTT SELAKANVSK LVAHLEMIEG DLALQGSIGS 1920
LSLSDLTCHG EFYRERFTTS GEEALIFQTF KYGRPDPLLR REHDIRVSLR MASVQYVHTQ 1980
RFQAEVVAFI QHFTQLQDVL GRQRAAIEGQ TVRDQAQRCS RVLLDIEAGA PVLLIPESSR 2040
SNNLIVANLG KLKVKNKFLF AGFPGTFSLQ DKESVPSASP TGIPKHSLRK TTSTEEPRGT 2100
HSQGQFTMPL AGMSLGSLKS EFVPSTSTKQ QGPQPTLSVG QESSSPEDHV CLLDCVVVDL 2160
QDMDIFAAER HPREYSKAPE DSSGDLIFPS YFVRQTGGSL LTEPCRLKLQ VERNLDKEIS 2220
HTVPDISIHG NLSSVHCSLD LYKYKLIRGL LENNLGEPIE EFMRPYDLQD PRIHTVLSGE 2280
VYTCMCFLID MVNVSLELKD PKRKEGAGSL ARFDFKKCKL LYESFSNQTK SINLVSHSMM 2340
AFDTRYAGQK TSPGMTNVFS CIFQPAKNSS TTQGSIQIEL HFRSTKDSSC FTVVLNNLRV 2400
FLIFDWLLLV HDFLHTPSDI KKQNHVTPSR HRNSSSESAI VPKTVKSGVV TKRSSLPVSN 2460
ERHLEVKVNV TGTEFVVIED VSCFDTNAII LKGTTVLTYK PRFVDRPFSG SLFGIEVFSC 2520
RLGNEHDTAL SIVDPVQIQM ELVGNSSYQN SSGLMDAFNS EDFPPVLEIQ LQALDIRLSY 2580
NDVQLFLAIA KSIPEQANAA VPDSVALESD SVGTYLPGAS RVGEEIREGT RHTLDPVLEL 2640
QLARLQELGF SMDDCRKALL ACQGQLKKAA SWLFKNAEPL KSLSLASTSR DSPGAVAAPL 2700
ISGVEIKAES VCICFIDDCM DCDVPLAELT FSRLNFLQRV RTSPEGYAHF TLSGDYYNRA 2760
LSGWEPFIEP WPCSVSWQQQ AASRLHPPRL KLEAKAKPRL DINITSVLID QYVSTKESWM 2820
ADYCKDDKDI ESAKSEDWMG SSVDPPCFGQ SLPLVYLRTR STASLTNLEH QIYAREVKTP 2880
KRRQPFVPFA LRNHTGCTLW FATLTTTPTR AALSHSGSPG VVPEGNGTFL DDTHNVSEWR 2940
EVLTGEEIPF EFEARGKLRH RHTHDLRIHQ LQVRVNGWEQ VSPVSVDKVG TFFRYAAPDK 3000
NSSSSTIGSP SSRTNIIHPQ VYFSSLPPVR VVFAVTMEGS ARKVITVRSA LIVRNRLETP 3060
MELRLDSPSA PDKPVVLPAI MPGDSFAVPL HLTSWRLQAR PKGLGVFFCK APIHWTNVVK 3120
TAEISSSKRE CHSMDTEKSR FFRFCVAIKK ENYPDYMPSN IFSDSAKQIF RQPGHTIYLL 3180
PTVVICNLLP CELDFYVKGM PINGTLKPGK EAALHTADTS QNIELGVSLE NFPLCKELLI 3240
PPGTQNYMVR MRLYDVNRRQ LNLTIRIVCR AEGSLKIFIS APYWLINKTG LPLIFRQDNA 3300
KTDAAGQFEE HELARSLSPL LFCYADKEQP NLCTMRIGRG IHPEGMPGWC QGFSLDGGSG 3360
VRALKVIQQG NRPGLIYNIG IDVKKGRGRY IDTCMVIFAP RYLLDNKSSH KLAFAQREFA 3420
RGQGTANPEG YISTLPGSSV VFHWPRNDYD QLLCVRLMDV PNCIWSGGFE VNKNNSFHIN 3480
MRDTLGKCFF LRVEITLRGA TYRISFSDTD QLPPPFRIDN FSKVPVVFTQ HGVAEPRLRT 3540
EVKPMTSLDY AWDEPTLPPF ITLTVKGAGS SEINCNMNDF QDNRQLYYEN FIYIAATYTF 3600
SGLQEGTGRP VASNKAITCA ELVLDVSPKT QRVILKKKEP GKRSQLWRMT GTGMLAHEGS 3660
SVPHNPNKPS AARSTEGSAI LDIAGLAAVT DNRYEPLMLR KPDRRRSTTQ TWSFREGKLT 3720
CGLHGLVVQA KGGLSGLFDG AEVVLGPDTS MELLGPVPPE QQFINQKMRP GSGMLSIRVI 3780
PDGPTRALQI TDFCHRKSSR SYEVDELPVT EQELQKLKNP DTEQELEVLV RLEGGIGLSL 3840
INKVPEELVF ASLTGINVHY TQLATSHMLE LSIQDVQVDN QLIGTTQPFM LYVTPLSNEN 3900
EVIETGPAVQ VNAVKFPSKS ALTNIYKHLM ITAQRFTVQI EEKLLLKLLS FFGYDQAESE 3960
VEKYDENLHE KTAEQGGTPI RYYFENLKIS IPQIKLSVFT SNKLPLDLKA LKSTLGFPLI 4020
RFEDAVINLD PFTRVHPYET KEFIINDILK HFQEELLSQA ARILGSVDFL GNPMGLLNDV 4080
SEGVTGLIKY GNVGGLIRNV THGVSNSAAK FAGTLSDGLG KTMDNRHQSE REYIRYHAAT 4140
SGEHLVAGIH GLAHGIIGGL TSVITSTVEG VKTEGGVSGF ISGLGKGLVG TVTKPVAGAL 4200
DFASETAQAV RDTATLSGPR TQAQRVRKPR CCTGPQGLLP RYSESQAEGQ EQLFKLTDNI 4260
QDEFFIAVEN IDSYCVLISS KAVYFLKSGD YVDREAIFLE VKYDDLYHCL VSKDHGKVYV 4320
QVTKKAVSTS SGVSIPGPSH QKPMVHVKSE VLAVKLSQEI NYAKSLYYEQ QLMLRLSENR 4380
EQLELDS 4387 
Gene Ontology
  
Interpro
 IPR009060; UBA-like.
 IPR000449; UBA/transl_elong_EF1B_N.
 IPR015940; UBA/transl_elong_EF1B_N_euk.
 IPR026847; VPS13.
 IPR026854; VPS13A_N.
 IPR009543; VPSAP_dom. 
Pfam
 PF12624; Chorein_N
 PF06650; DUF1162
 PF00627; UBA 
SMART
 SM00165; UBA 
PROSITE
 PS50030; UBA 
PRINTS