CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-012419
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Proteasome activator complex subunit 4 
Protein Synonyms/Alias
 Proteasome activator PA200 
Gene Name
 PSME4 
Gene Synonyms/Alias
 KIAA0077 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
36QKEIVYNKLLPYAERubiquitination[1]
56DLQLAQIKCNLGRAVubiquitination[1]
278DWDPYVPKIFTRILRubiquitination[2]
636DMCRAAVKCCPEESLubiquitination[1, 3]
916HEFDSRWKSFNLVKKubiquitination[1, 4, 5, 6]
1082LFDDLAEKIHRQYETubiquitination[1]
1397SKHWTFEKVEKLWELacetylation[7]
1619DNSYDELKRDAKLCLubiquitination[1, 2]
1758IPSAELVKRHAGVLGubiquitination[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] 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] 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]
 [4] 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]
 [5] Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass.
 Povlsen LK, Beli P, Wagner SA, Poulsen SL, Sylvestersen KB, Poulsen JW, Nielsen ML, Bekker-Jensen S, Mailand N, Choudhary C.
 Nat Cell Biol. 2012 Oct;14(10):1089-98. [PMID: 23000965]
 [6] 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]
 [7] Regulation of cellular metabolism by protein lysine acetylation.
 Zhao S, Xu W, Jiang W, Yu W, Lin Y, Zhang T, Yao J, Zhou L, Zeng Y, Li H, Li Y, Shi J, An W, Hancock SM, He F, Qin L, Chin J, Yang P, Chen X, Lei Q, Xiong Y, Guan KL.
 Science. 2010 Feb 19;327(5968):1000-4. [PMID: 20167786] 
Functional Description
 Associated component of the proteasome that specifically recognizes acetylated histones and promotes ATP- and ubiquitin- independent degradation of core histones during spermatogenesis and DNA damage response. Recognizes and binds acetylated histones via its bromodomain-like (BRDL) region and activates the proteasome by opening the gated channel for substrate entry. Binds to the core proteasome via its C-terminus, which occupies the same binding sites as the proteasomal ATPases, opening the closed structure of the proteasome via an active gating mechanism. Component of the spermatoproteasome, a form of the proteasome specifically found in testis: binds to acetylated histones and promotes degradation of histones, thereby participating actively to the exchange of histones during spermatogenesis. Also involved in DNA damage response in somatic cells, by promoting degradation of histones following DNA double-strand breaks. 
Sequence Annotation
 REPEAT 475 519 HEAT 1.
 REPEAT 998 1037 HEAT 2.
 REPEAT 1179 1217 HEAT 3.
 REPEAT 1354 1392 HEAT 4.
 REPEAT 1636 1674 HEAT 5.
 REPEAT 1680 1718 HEAT 6.
 REGION 1650 1738 Bromodomain-like (BRDL).
 MOD_RES 1121 1121 Phosphoserine.  
Keyword
 Alternative splicing; Complete proteome; Cytoplasm; Developmental protein; Differentiation; DNA damage; DNA repair; Nucleus; Phosphoprotein; Polymorphism; Proteasome; Reference proteome; Repeat; Spermatogenesis. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 1843 AA 
Protein Sequence
MEPAERAGVG EPPEPGGRPE PGPRGFVPQK EIVYNKLLPY AERLDAESDL QLAQIKCNLG 60
RAVQLQELWP GGLFWTRKLS TYIRLYGRKF SKEDHVLFIK LLYELVSIPK LEISMMQGFA 120
RLLINLLKKK ELLSRADLEL PWRPLYDMVE RILYSKTEHL GLNWFPNSVE NILKTLVKSC 180
RPYFPADATA EMLEEWRPLM CPFDVTMQKA ITYFEIFLPT SLPPELHHKG FKLWFDELIG 240
LWVSVQNLPQ WEGQLVNLFA RLATDNIGYI DWDPYVPKIF TRILRSLNLP VGSSQVLVPR 300
FLTNAYDIGH AVIWITAMMG GPSKLVQKHL AGLFNSITSF YHPSNNGRWL NKLMKLLQRL 360
PNSVVRRLHR ERYKKPSWLT PVPDSHKLTD QDVTDFVQCI IQPVLLAMFS KTGSLEAAQA 420
LQNLALMRPE LVIPPVLERT YPALETLTEP HQLTATLSCV IGVARSLVSG GRWFPEGPTH 480
MLPLLMRALP GVDPNDFSKC MITFQFIATF STLVPLVDCS SVLQERNDLT EVERELCSAT 540
AEFEDFVLQF MDRCFGLIES STLEQTREET ETEKMTHLES LVELGLSSTF STILTQCSKE 600
IFMVALQKVF NFSTSHIFET RVAGRMVADM CRAAVKCCPE ESLKLFVPHC CSVITQLTMN 660
DDVLNDEELD KELLWNLQLL SEITRVDGRK LLLYREQLVK ILQRTLHLTC KQGYTLSCNL 720
LHHLLRSTTL IYPTEYCSVP GGFDKPPSEY FPIKDWGKPG DLWNLGIQWH VPSSEEVSFA 780
FYLLDSFLQP ELVKLQHCGD GKLEMSRDDI LQSLTIVHNC LIGSGNLLPP LKGEPVTNLV 840
PSMVSLEETK LYTGLEYDLS RENHREVIAT VIRKLLNHIL DNSEDDTKSL FLIIKIIGDL 900
LQFQGSHKHE FDSRWKSFNL VKKSMENRLH GKKQHIRALL IDRVMLQHEL RTLTVEGCEY 960
KKIHQDMIRD LLRLSTSSYS QVRNKAQQTF FAALGAYNFC CRDIIPLVLE FLRPDRQGVT 1020
QQQFKGALYC LLGNHSGVCL ANLHDWDCIV QTWPAIVSSG LSQAMSLEKP SIVRLFDDLA 1080
EKIHRQYETI GLDFTIPKSC VEIAELLQQS KNPSINQILL SPEKIKEGIK RQQEKNADAL 1140
RNYENLVDTL LDGVEQRNLP WKFEHIGIGL LSLLLRDDRV LPLRAIRFFV ENLNHDAIVV 1200
RKMAISAVAG ILKQLKRTHK KLTINPCEIS GCPKPTQIIA GDRPDNHWLH YDSKTIPRTK 1260
KEWESSCFVE KTHWGYYTWP KNMVVYAGVE EQPKLGRSRE DMTEAEQIIF DHFSDPKFVE 1320
QLITFLSLED RKGKDKFNPR RFCLFKGIFR NFDDAFLPVL KPHLEHLVAD SHESTQRCVA 1380
EIIAGLIRGS KHWTFEKVEK LWELLCPLLR TALSNITVET YNDWGACIAT SCESRDPRKL 1440
HWLFELLLES PLSGEGGSFV DACRLYVLQG GLAQQEWRVP ELLHRLLKYL EPKLTQVYKN 1500
VRERIGSVLT YIFMIDVSLP NTTPTISPHV PEFTARILEK LKPLMDVDEE IQNHVMEENG 1560
IGEEDERTQG IKLLKTILKW LMASAGRSFS TAVTEQLQLL PLFFKIAPVE NDNSYDELKR 1620
DAKLCLSLMS QGLLYPHQVP LVLQVLKQTA RSSSWHARYT VLTYLQTMVF YNLFIFLNNE 1680
DAVKDIRWLV ISLLEDEQLE VREMAATTLS GLLQCNFLTM DSPMQIHFEQ LCKTKLPKKR 1740
KRDPGSVGDT IPSAELVKRH AGVLGLGACV LSSPYDVPTW MPQLLMNLSA HLNDPQPIEM 1800
TVKKTLSNFR RTHHDNWQEH KQQFTDDQLL VLTDLLVSPC YYA 1843 
Gene Ontology
 GO:0005829; C:cytosol; TAS:Reactome.
 GO:0016607; C:nuclear speck; IEA:UniProtKB-SubCell.
 GO:0000502; C:proteasome complex; IEA:UniProtKB-KW.
 GO:0031145; P:anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process; TAS:Reactome.
 GO:0002479; P:antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent; TAS:Reactome.
 GO:0006915; P:apoptotic process; TAS:Reactome.
 GO:0030154; P:cell differentiation; IEA:UniProtKB-KW.
 GO:0006977; P:DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest; TAS:Reactome.
 GO:0010467; P:gene expression; TAS:Reactome.
 GO:0016071; P:mRNA metabolic process; TAS:Reactome.
 GO:0007275; P:multicellular organismal development; IEA:UniProtKB-KW.
 GO:0051437; P:positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle; TAS:Reactome.
 GO:0000209; P:protein polyubiquitination; TAS:Reactome.
 GO:0042981; P:regulation of apoptotic process; TAS:Reactome.
 GO:0006521; P:regulation of cellular amino acid metabolic process; TAS:Reactome.
 GO:0044281; P:small molecule metabolic process; TAS:Reactome.
 GO:0007283; P:spermatogenesis; IEA:UniProtKB-KW.
 GO:0016032; P:viral reproduction; TAS:Reactome. 
Interpro
 IPR011989; ARM-like.
 IPR016024; ARM-type_fold.
 IPR021843; DUF3437. 
Pfam
 PF11919; DUF3437 
SMART
  
PROSITE
 PS50077; HEAT_REPEAT 
PRINTS