CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-007803
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Transitional endoplasmic reticulum ATPase 
Protein Synonyms/Alias
 TER ATPase; 15S Mg(2+)-ATPase p97 subunit; Valosin-containing protein; VCP 
Gene Name
 Vcp 
Gene Synonyms/Alias
  
Created Date
 July 27, 2013 
Organism
 Rattus norvegicus (Rat) 
NCBI Taxa ID
 10116 
Lysine Modification
Position
Peptide
Type
References
8MASGADSKGDDLSTAacetylation[1]
8MASGADSKGDDLSTAubiquitination[2]
18DLSTAILKQKNRPNRacetylation[1]
60RGDTVLLKGKKRREAacetylation[1]
231LRHPALFKAIGVKPPubiquitination[2]
236LFKAIGVKPPRGILLubiquitination[2]
288ESESNLRKAFEEAEKacetylation[1]
336LTLMDGLKQRAHVIVacetylation[1]
502YPVEHPDKFLKFGMTubiquitination[2]
565NVREIFDKARQAAPCacetylation[1]
614EMDGMSTKKNVFIIGubiquitination[2]
651YIPLPDEKSRVAILKacetylation[1]
658KSRVAILKANLRKSPubiquitination[2]
668LRKSPVAKDVDLEFLacetylation[1]
668LRKSPVAKDVDLEFLubiquitination[2]
754VSDNDIRKYEMFAQTacetylation[1]
Reference
 [1] Proteomic analysis of lysine acetylation sites in rat tissues reveals organ specificity and subcellular patterns.
 Lundby A, Lage K, Weinert BT, Bekker-Jensen DB, Secher A, Skovgaard T, Kelstrup CD, Dmytriyev A, Choudhary C, Lundby C, Olsen JV.
 Cell Rep. 2012 Aug 30;2(2):419-31. [PMID: 22902405]
 [2] Synaptic protein ubiquitination in rat brain revealed by antibody-based ubiquitome analysis.
 Na CH, Jones DR, Yang Y, Wang X, Xu Y, Peng J.
 J Proteome Res. 2012 Sep 7;11(9):4722-32. [PMID: 22871113] 
Functional Description
 Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation of the transitional endoplasmic reticulum (tER). The transfer of membranes from the endoplasmic reticulum to the Golgi apparatus occurs via 50-70 nm transition vesicles which derive from part-rough, part-smooth transitional elements of the endoplasmic reticulum (tER). Vesicle budding from the tER is an ATP-dependent process. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. Regulates E3 ubiquitin-protein ligase activity of RNF19A. Also involved in DNA damage response: recruited to double-strand breaks (DSBs) sites in a RNF8- and RNF168-dependent manner and promotes the recruitment of TP53BP1 at DNA damage sites. Recruited to stalled replication forks by SPRTN: may act by mediating extraction of DNA polymerase eta (POLH) to prevent excessive translesion DNA synthesis and limit the incidence of mutations induced by DNA damage (By similarity). Component of the VCP/p97- AMFR/gp78 complex that participates in the final step of the sterol-mediated ubiquitination and endoplasmic reticulum- associated degradation (ERAD) of HMGCR. 
Sequence Annotation
 NP_BIND 247 253 ATP (By similarity).
 REGION 797 806 Interaction with UBXN6 (By similarity).
 BINDING 348 348 ATP (By similarity).
 BINDING 384 384 ATP (By similarity).
 MOD_RES 2 2 N-acetylalanine (By similarity).
 MOD_RES 3 3 Phosphoserine (By similarity).
 MOD_RES 7 7 Phosphoserine (By similarity).
 MOD_RES 37 37 Phosphoserine (By similarity).
 MOD_RES 315 315 N6,N6,N6-trimethyllysine; by METTL21D (By
 MOD_RES 436 436 Phosphothreonine (By similarity).
 MOD_RES 770 770 Phosphoserine (By similarity).
 MOD_RES 775 775 Phosphoserine (By similarity).
 MOD_RES 787 787 Phosphoserine (By similarity).  
Keyword
 Acetylation; ATP-binding; Complete proteome; Cytoplasm; Direct protein sequencing; DNA damage; DNA repair; Endoplasmic reticulum; Hydrolase; Lipid-binding; Methylation; Nucleotide-binding; Nucleus; Phosphoprotein; Reference proteome; Transport; Ubl conjugation. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 806 AA 
Protein Sequence
MASGADSKGD DLSTAILKQK NRPNRLIVDE AINEDNSVVS LSQPKMDELQ LFRGDTVLLK 60
GKKRREAVCI VLSDDTCSDE KIRMNRVVRN NLRVRLGDVI SIQPCPDVKY GKRIHVLPID 120
DTVEGITGNL FEVYLKPYFL EAYRPIRKGD IFLVRGGMRA VEFKVVETDP SPYCIVAPDT 180
VIHCEGEPIK REDEEESLNE VGYDDIGGCR KQLAQIKEMV ELPLRHPALF KAIGVKPPRG 240
ILLYGPPGTG KTLIARAVAN ETGAFFFLIN GPEIMSKLAG ESESNLRKAF EEAEKNAPAI 300
IFIDELDAIA PKREKTHGEV ERRIVSQLLT LMDGLKQRAH VIVMAATNRP NSIDPALRRF 360
GRFDREVDIG IPDATGRLEI LQIHTKNMKL ADDVDLEQVA NETHGHVGAD LAALCSEAAL 420
QAIRKKMDLI DLEDETIDAE VMNSLAVTMD DFRWALSQSN PSALRETVVE VPQVTWEDIG 480
GLEDVKRELQ ELVQYPVEHP DKFLKFGMTP SKGVLFYGPP GCGKTLLAKA IANECQANFI 540
SIKGPELLTM WFGESEANVR EIFDKARQAA PCVLFFDELD SIAKARGGNI GDGGGAADRV 600
INQILTEMDG MSTKKNVFII GATNRPDIID PAILRPGRLD QLIYIPLPDE KSRVAILKAN 660
LRKSPVAKDV DLEFLAKMTN GFSGADLTEI CQRACKLAIR ESIESEIRRE RERQTNPSAM 720
EVEEDDPVPE IRRDHFEEAM RFARRSVSDN DIRKYEMFAQ TLQQSRGFGS FRFPSGNQGG 780
AGPSQGSGGG TGGNVYTEDN DDDLYG 806 
Gene Ontology
 GO:0005829; C:cytosol; IDA:RGD.
 GO:0005783; C:endoplasmic reticulum; IDA:RGD.
 GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
 GO:0000502; C:proteasome complex; IEA:Compara.
 GO:0035861; C:site of double-strand break; ISS:UniProtKB.
 GO:0043531; F:ADP binding; IMP:RGD.
 GO:0005524; F:ATP binding; IDA:BHF-UCL.
 GO:0016887; F:ATPase activity; IDA:RGD.
 GO:0042802; F:identical protein binding; IDA:BHF-UCL.
 GO:0008289; F:lipid binding; IEA:UniProtKB-KW.
 GO:0005102; F:receptor binding; IDA:RGD.
 GO:0006919; P:activation of cysteine-type endopeptidase activity involved in apoptotic process; IEA:Compara.
 GO:0070842; P:aggresome assembly; IEA:Compara.
 GO:0006302; P:double-strand break repair; ISS:UniProtKB.
 GO:0006888; P:ER to Golgi vesicle-mediated transport; IMP:RGD.
 GO:0030433; P:ER-associated protein catabolic process; ISS:UniProtKB.
 GO:0032436; P:positive regulation of proteasomal ubiquitin-dependent protein catabolic process; IMP:RGD.
 GO:0031334; P:positive regulation of protein complex assembly; IEA:Compara.
 GO:0051260; P:protein homooligomerization; IDA:RGD.
 GO:0018279; P:protein N-linked glycosylation via asparagine; ISS:UniProtKB.
 GO:0016567; P:protein ubiquitination; ISS:UniProtKB.
 GO:0030970; P:retrograde protein transport, ER to cytosol; IEA:Compara.
 GO:0019985; P:translesion synthesis; ISS:UniProtKB. 
Interpro
 IPR003593; AAA+_ATPase.
 IPR009010; Asp_de-COase-like_dom.
 IPR005938; ATPase_AAA_CDC48.
 IPR003959; ATPase_AAA_core.
 IPR003960; ATPase_AAA_CS.
 IPR004201; Cdc48_dom2.
 IPR003338; CDC4_N-term_subdom.
 IPR027417; P-loop_NTPase.
 IPR015415; Vps4_C. 
Pfam
 PF00004; AAA
 PF02933; CDC48_2
 PF02359; CDC48_N
 PF09336; Vps4_C 
SMART
 SM00382; AAA
 SM01072; CDC48_2
 SM01073; CDC48_N 
PROSITE
 PS00674; AAA 
PRINTS