CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-029107
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
  
Protein Name
 40S ribosomal protein S4, X isoform 
Protein Synonyms/Alias
  
Gene Name
 RPS4X 
Gene Synonyms/Alias
  
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
16LKRVAAPKHWMLDKLubiquitination[1, 2]
22PKHWMLDKLTGVFAPacetylation[3]
22PKHWMLDKLTGVFAPubiquitination[1, 2]
37RPSTGPHKLRECLPLubiquitination[2, 4]
53IFLRNRLKYALTGDEubiquitination[1, 2, 4, 5, 6, 7]
62ALTGDEVKKICMQRFubiquitination[1, 4, 5, 6]
63LTGDEVKKICMQRFIubiquitination[1, 2]
71ICMQRFIKIDGKVRTubiquitination[2, 4]
75RFIKIDGKVRTDITYubiquitination[2]
94MDVISIDKTGENFRLubiquitination[1, 2, 4, 5, 6, 8, 9]
106FRLIYDTKGRFAVHRubiquitination[1, 2, 4, 5, 6, 9]
Reference
 [1] 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]
 [2] 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]
 [3] 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]
 [4] 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]
 [5] 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]
 [6] 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]
 [7] 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]
 [8] Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level.
 Danielsen JM, Sylvestersen KB, Bekker-Jensen S, Szklarczyk D, Poulsen JW, Horn H, Jensen LJ, Mailand N, Nielsen ML.
 Mol Cell Proteomics. 2011 Mar;10(3):M110.003590. [PMID: 21139048]
 [9] 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
Functional Description
  
Sequence Annotation
  
Keyword
 Complete proteome; Reference proteome. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 122 AA 
Protein Sequence
MARGPKKHLK RVAAPKHWML DKLTGVFAPR PSTGPHKLRE CLPLIIFLRN RLKYALTGDE 60
VKKICMQRFI KIDGKVRTDI TYPAGFMDVI SIDKTGENFR LIYDTKGRFA VHRITPEEAK 120
PC 122 
Gene Ontology
 GO:0005840; C:ribosome; IEA:InterPro.
 GO:0003723; F:RNA binding; IEA:InterPro.
 GO:0003735; F:structural constituent of ribosome; IEA:InterPro.
 GO:0006412; P:translation; IEA:InterPro. 
Interpro
 IPR000876; Ribosomal_S4e.
 IPR013845; Ribosomal_S4e_central_region.
 IPR013843; Ribosomal_S4e_N.
 IPR018199; Ribosomal_S4e_N_CS.
 IPR002942; S4_RNA-bd. 
Pfam
 PF00900; Ribosomal_S4e
 PF08071; RS4NT
 PF01479; S4 
SMART
 SM00363; S4 
PROSITE
 PS00528; RIBOSOMAL_S4E
 PS50889; S4 
PRINTS