CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-009615
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 60S ribosomal protein L10a 
Protein Synonyms/Alias
 CSA-19; Neural precursor cell expressed developmentally down-regulated protein 6; NEDD-6 
Gene Name
 RPL10A 
Gene Synonyms/Alias
 NEDD6 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
62LKSTPRPKFSVCVLGubiquitination[1, 2]
78QQHCDEAKAVDIPHMubiquitination[1]
91HMDIEALKKLNKNKKacetylation[2, 3, 4]
91HMDIEALKKLNKNKKubiquitination[5, 6, 7, 8]
92MDIEALKKLNKNKKLubiquitination[1]
106LVKKLAKKYDAFLASacetylation[2, 3]
106LVKKLAKKYDAFLASmethylation[9]
106LVKKLAKKYDAFLASubiquitination[1, 5, 8, 10, 11]
118LASESLIKQIPRILGacetylation[2, 3, 4, 12]
118LASESLIKQIPRILGubiquitination[1, 2, 5, 6, 7, 8, 10, 11, 13]
130ILGPGLNKAGKFPSLubiquitination[1, 2, 5, 6, 8, 11]
133PGLNKAGKFPSLLTHacetylation[2]
133PGLNKAGKFPSLLTHubiquitination[1, 2, 5, 8, 11]
152VAKVDEVKSTIKFQMubiquitination[1, 2, 6, 7, 13]
212YIKSTMGKPQRLY**ubiquitination[6]
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] 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]
 [3] 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]
 [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] 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]
 [6] 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]
 [7] Landscape of the PARKIN-dependent ubiquitylome in response to mitochondrial depolarization.
 Sarraf SA, Raman M, Guarani-Pereira V, Sowa ME, Huttlin EL, Gygi SP, Harper JW.
 Nature. 2013 Apr 18;496(7445):372-6. [PMID: 23503661]
 [8] 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]
 [9] Mass spectrometry-based identification and characterisation of lysine and arginine methylation in the human proteome.
 Bremang M, Cuomo A, Agresta AM, Stugiewicz M, Spadotto V, Bonaldi T.
 Mol Biosyst. 2013 Jul 30;9(9):2231-47. [PMID: 23748837]
 [10] 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]
 [11] 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]
 [12] Proteomic investigations reveal a role for RNA processing factor THRAP3 in the DNA damage response.
 Beli P, Lukashchuk N, Wagner SA, Weinert BT, Olsen JV, Baskcomb L, Mann M, Jackson SP, Choudhary C.
 Mol Cell. 2012 Apr 27;46(2):212-25. [PMID: 22424773]
 [13] 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
Functional Description
  
Sequence Annotation
 MOD_RES 2 2 N-acetylserine (Probable).
 MOD_RES 11 11 Phosphotyrosine (By similarity).
 MOD_RES 106 106 N6-acetyllysine.
 MOD_RES 118 118 N6-acetyllysine.  
Keyword
 3D-structure; Acetylation; Complete proteome; Phosphoprotein; Polymorphism; Reference proteome; Ribonucleoprotein; Ribosomal protein. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 217 AA 
Protein Sequence
MSSKVSRDTL YEAVREVLHG NQRKRRKFLE TVELQISLKN YDPQKDKRFS GTVRLKSTPR 60
PKFSVCVLGD QQHCDEAKAV DIPHMDIEAL KKLNKNKKLV KKLAKKYDAF LASESLIKQI 120
PRILGPGLNK AGKFPSLLTH NENMVAKVDE VKSTIKFQMK KVLCLAVAVG HVKMTDDELV 180
YNIHLAVNFL VSLLKKNWQN VRALYIKSTM GKPQRLY 217 
Gene Ontology
 GO:0022625; C:cytosolic large ribosomal subunit; IDA:UniProtKB.
 GO:0005739; C:mitochondrion; IEA:Compara.
 GO:0003723; F:RNA binding; IEA:InterPro.
 GO:0003735; F:structural constituent of ribosome; NAS:UniProtKB.
 GO:0009653; P:anatomical structure morphogenesis; TAS:ProtInc.
 GO:0000184; P:nuclear-transcribed mRNA catabolic process, nonsense-mediated decay; TAS:Reactome.
 GO:0006614; P:SRP-dependent cotranslational protein targeting to membrane; TAS:Reactome.
 GO:0006414; P:translational elongation; TAS:Reactome.
 GO:0006413; P:translational initiation; TAS:Reactome.
 GO:0006415; P:translational termination; TAS:Reactome.
 GO:0019083; P:viral transcription; TAS:Reactome. 
Interpro
 IPR002143; Ribosomal_L1.
 IPR016094; Ribosomal_L1_2-a/b-sand.
 IPR016095; Ribosomal_L1_3-a/b-sand.
 IPR023673; Ribosomal_L1_CS.
 IPR023674; Ribosomal_L1_SF. 
Pfam
 PF00687; Ribosomal_L1 
SMART
  
PROSITE
 PS01199; RIBOSOMAL_L1 
PRINTS