CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-000006
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 ATP-dependent RNA helicase DDX39A 
Protein Synonyms/Alias
 DEAD box protein 39; Nuclear RNA helicase URH49 
Gene Name
 DDX39A 
Gene Synonyms/Alias
 DDX39 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
35APPKKDIKGSYVSIHacetylation[1]
35APPKKDIKGSYVSIHubiquitination[2, 3, 4]
52GFRDFLLKPELLRAIacetylation[1]
52GFRDFLLKPELLRAIubiquitination[3, 4, 5]
89MDVLCQAKSGMGKTAubiquitination[4]
130ELAFQISKEYERFSKubiquitination[3, 4]
137KEYERFSKYMPSVKVubiquitination[2, 4]
154FFGGLSIKKDEEVLKubiquitination[2]
162KDEEVLKKNCPHVVVubiquitination[4]
187RNRSFSLKNVKHFVLacetylation[1]
187RNRSFSLKNVKHFVLubiquitination[4]
190SFSLKNVKHFVLDECubiquitination[4]
221FRLTPHEKQCMMFSAubiquitination[4]
240DIRPVCRKFMQDPMEubiquitination[3, 4]
267GLQQYYVKLKDSEKNubiquitination[3, 4, 5]
269QQYYVKLKDSEKNRKubiquitination[4]
333LSRYQQFKDFQRRILubiquitination[4]
383RAGRFGTKGLAITFVubiquitination[4, 5]
Reference
 [1] 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]
 [2] 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]
 [3] 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]
 [4] 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]
 [5] 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
 Involved in pre-mRNA splicing. Required for the export of mRNA out of the nucleus. 
Sequence Annotation
 DOMAIN 75 248 Helicase ATP-binding.
 DOMAIN 260 421 Helicase C-terminal.
 NP_BIND 88 95 ATP (By similarity).
 MOTIF 44 72 Q motif.
 MOTIF 195 198 DECD box.
 MOD_RES 2 2 N-acetylalanine.
 MOD_RES 35 35 N6-acetyllysine.
 MOD_RES 171 171 Phosphothreonine.
 MOD_RES 426 426 Phosphoserine.  
Keyword
 Acetylation; Alternative splicing; ATP-binding; Complete proteome; Cytoplasm; Helicase; Hydrolase; mRNA processing; mRNA splicing; Nucleotide-binding; Nucleus; Phosphoprotein; Polymorphism; Reference proteome. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 427 AA 
Protein Sequence
MAEQDVENDL LDYDEEEEPQ APQESTPAPP KKDIKGSYVS IHSSGFRDFL LKPELLRAIV 60
DCGFEHPSEV QHECIPQAIL GMDVLCQAKS GMGKTAVFVL ATLQQIEPVN GQVTVLVMCH 120
TRELAFQISK EYERFSKYMP SVKVSVFFGG LSIKKDEEVL KKNCPHVVVG TPGRILALVR 180
NRSFSLKNVK HFVLDECDKM LEQLDMRRDV QEIFRLTPHE KQCMMFSATL SKDIRPVCRK 240
FMQDPMEVFV DDETKLTLHG LQQYYVKLKD SEKNRKLFDL LDVLEFNQVI IFVKSVQRCM 300
ALAQLLVEQN FPAIAIHRGM AQEERLSRYQ QFKDFQRRIL VATNLFGRGM DIERVNIVFN 360
YDMPEDSDTY LHRVARAGRF GTKGLAITFV SDENDAKILN DVQDRFEVNV AELPEEIDIS 420
TYIEQSR 427 
Gene Ontology
 GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
 GO:0005634; C:nucleus; IDA:UniProtKB.
 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:0006406; P:mRNA export from nucleus; IGI:UniProtKB.
 GO:0000398; P:mRNA splicing, via spliceosome; IGI:UniProtKB. 
Interpro
 IPR011545; DNA/RNA_helicase_DEAD/DEAH_N.
 IPR014001; Helicase_ATP-bd.
 IPR001650; Helicase_C.
 IPR027417; P-loop_NTPase.
 IPR014014; RNA_helicase_DEAD_Q_motif. 
Pfam
 PF00270; DEAD
 PF00271; Helicase_C 
SMART
 SM00487; DEXDc
 SM00490; HELICc 
PROSITE
 PS51192; HELICASE_ATP_BIND_1
 PS51194; HELICASE_CTER
 PS51195; Q_MOTIF 
PRINTS