CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-030994
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Probable ATP-dependent RNA helicase DDX5 
Protein Synonyms/Alias
 cDNA FLJ59339, highly similar to Probable ATP-dependent RNA helicase DDX5 (EC 3.6.1.-) 
Gene Name
 DDX5 
Gene Synonyms/Alias
  
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
32RAGPLSGKKFGNPGEacetylation[1]
40KFGNPGEKLVKKKWNacetylation[1, 2, 3]
40KFGNPGEKLVKKKWNubiquitination[1, 4, 5]
53WNLDELPKFEKNFYQubiquitination[5, 6]
56DELPKFEKNFYQEHPmethylation[7]
56DELPKFEKNFYQEHPubiquitination[1, 5, 6, 8]
80VETYRRSKEITVRGDubiquitination[1, 5, 6]
118YCRACRLKSTCIYGGubiquitination[1, 4, 5, 9, 10]
128CIYGGAPKGPQIRDLubiquitination[1, 4, 5, 6, 9]
157IDFLECGKTNLRRTTacetylation[1, 3]
157IDFLECGKTNLRRTTubiquitination[1, 4, 5, 6, 9]
185GFEPQIRKIVDQIRPacetylation[1]
185GFEPQIRKIVDQIRPubiquitination[1, 5]
205MWSATWPKEVRQLAEubiquitination[1, 4, 5, 6, 8, 9, 11]
261MEEIMSEKENKTIVFacetylation[1, 3]
261MEEIMSEKENKTIVFubiquitination[1, 4, 5, 6, 9, 11]
264IMSEKENKTIVFVETubiquitination[1, 5]
272TIVFVETKRRCDELTubiquitination[1, 4, 5, 6, 9, 11]
296AMGIHGDKSQQERDWubiquitination[1, 5, 6]
309DWVLNEFKHGKAPILubiquitination[1, 4, 5, 6, 8, 11]
312LNEFKHGKAPILIATubiquitination[1, 4, 5, 6, 9, 11]
332GLDVEDVKFVINYDYubiquitination[5, 6, 9, 11]
358GRTARSTKTGTAYTFubiquitination[1, 4, 5, 6, 8, 9, 11]
372FFTPNNIKQVSDLISubiquitination[5, 6, 11]
391ANQAINPKLLQLVEDacetylation[3]
391ANQAINPKLLQLVEDubiquitination[1, 4, 5, 6, 8, 9, 10, 11]
444RGYSSLLKRDFGAKTubiquitination[1, 4, 5, 8, 9, 11]
Reference
 [1] 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]
 [2] 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]
 [3] 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]
 [4] 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]
 [5] 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]
 [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] Large-scale global identification of protein lysine methylation in vivo.
 Cao XJ, Arnaudo AM, Garcia BA.
 Epigenetics. 2013 May 1;8(5):477-85. [PMID: 23644510]
 [8] 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]
 [9] 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]
 [10] Proteome-wide identification of ubiquitylation sites by conjugation of engineered lysine-less ubiquitin.
 Oshikawa K, Matsumoto M, Oyamada K, Nakayama KI.
 J Proteome Res. 2012 Feb 3;11(2):796-807. [PMID: 22053931]
 [11] 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
 ATP-binding; Complete proteome; Helicase; Hydrolase; Nucleotide-binding; Reference proteome. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 535 AA 
Protein Sequence
MSGYSSDRDR GRDRGFGAPR FGGSRAGPLS GKKFGNPGEK LVKKKWNLDE LPKFEKNFYQ 60
EHPDLARRTA QEVETYRRSK EITVRGDGPI CLVLAPTREL AQQVQQVAAE YCRACRLKST 120
CIYGGAPKGP QIRDLERGVE ICIATPGRLI DFLECGKTNL RRTTYLVLDE ADRMLDMGFE 180
PQIRKIVDQI RPDRQTLMWS ATWPKEVRQL AEDFLKDYIH INIGALELSA NHNILQIVDV 240
CHDVEKDEKL IRLMEEIMSE KENKTIVFVE TKRRCDELTR KMRRDGWPAM GIHGDKSQQE 300
RDWVLNEFKH GKAPILIATD VASRGLDVED VKFVINYDYP NSSEDYIHRI GRTARSTKTG 360
TAYTFFTPNN IKQVSDLISV LREANQAINP KLLQLVEDRG SGRSRGRGGM KDDRRDRYSA 420
GKRGGFNTFR DRENYDRGYS SLLKRDFGAK TQNGVYSAAN YTNGSFGSNF VSAGIQTSFR 480
TGNPTGTYQN GYDSTQQYGS NVPNMHNGMN QQAYAYPATA AAPMIGYPMP TGYSQ 535 
Gene Ontology
 GO:0005634; C:nucleus; IEA:InterPro.
 GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
 GO:0008026; F:ATP-dependent helicase activity; IEA:InterPro.
 GO:0003676; F:nucleic acid binding; IEA:InterPro.
 GO:0003724; F:RNA helicase activity; IEA:InterPro.
 GO:0003712; F:transcription cofactor activity; IEA:InterPro. 
Interpro
 IPR011545; DNA/RNA_helicase_DEAD/DEAH_N.
 IPR014001; Helicase_ATP-bd.
 IPR001650; Helicase_C.
 IPR027417; P-loop_NTPase.
 IPR012587; P68HR.
 IPR000629; RNA-helicase_DEAD-box_CS. 
Pfam
 PF00270; DEAD
 PF00271; Helicase_C
 PF08061; P68HR 
SMART
 SM00487; DEXDc
 SM00490; HELICc 
PROSITE
 PS00039; DEAD_ATP_HELICASE
 PS51192; HELICASE_ATP_BIND_1
 PS51194; HELICASE_CTER 
PRINTS