CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-012209
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Spliceosome RNA helicase DDX39B 
Protein Synonyms/Alias
 56 kDa U2AF65-associated protein; ATP-dependent RNA helicase p47; DEAD box protein UAP56; HLA-B-associated transcript 1 protein 
Gene Name
 DDX39B 
Gene Synonyms/Alias
 BAT1; UAP56 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
33GAEAPAKKDVKGSYVubiquitination[1]
36APAKKDVKGSYVSIHacetylation[2]
36APAKKDVKGSYVSIHubiquitination[1]
95QAKSGMGKTAVFVLAubiquitination[1]
138KEYERFSKYMPNVKVubiquitination[1]
188RNKSLNLKHIKHFILacetylation[2]
256IFVDDETKLTLHGLQubiquitination[1, 3]
268GLQQYYVKLKDNEKNubiquitination[1]
334LSRYQQFKDFQRRILubiquitination[1]
384RAGRFGTKGLAITFVubiquitination[3]
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] 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]
 [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
Functional Description
 Component of the THO subcomplex of the TREX complex. The TREX complex specifically associates with spliced mRNA and not with unspliced pre-mRNA. It is recruited to spliced mRNAs by a transcription-independent mechanism. Binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export. The recruitment occurs via an interaction between ALYREF/THOC4 and the cap-binding protein NCBP1. DDX39B functions as a bridge between ALYREF/THOC4 and the THO complex. The TREX complex is essential for the export of Kaposi's sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production. The recruitment of the TREX complex to the intronless viral mRNA occurs via an interaction between KSHV ORF57 protein and ALYREF/THOC4. 
Sequence Annotation
 DOMAIN 76 249 Helicase ATP-binding.
 DOMAIN 261 422 Helicase C-terminal.
 NP_BIND 89 96 ATP.
 MOTIF 45 73 Q motif.
 MOTIF 196 199 DECD box.
 MOD_RES 2 2 N-acetylalanine.
 MOD_RES 36 36 N6-acetyllysine.
 MOD_RES 38 38 Phosphoserine.
 MOD_RES 172 172 Phosphothreonine.  
Keyword
 3D-structure; Acetylation; Alternative splicing; ATP-binding; Complete proteome; Cytoplasm; Helicase; Hydrolase; mRNA processing; mRNA splicing; mRNA transport; Nucleotide-binding; Nucleus; Phosphoprotein; Reference proteome; RNA-binding; Spliceosome; Transport. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 428 AA 
Protein Sequence
MAENDVDNEL LDYEDDEVET AAGGDGAEAP AKKDVKGSYV SIHSSGFRDF LLKPELLRAI 60
VDCGFEHPSE VQHECIPQAI LGMDVLCQAK SGMGKTAVFV LATLQQLEPV TGQVSVLVMC 120
HTRELAFQIS KEYERFSKYM PNVKVAVFFG GLSIKKDEEV LKKNCPHIVV GTPGRILALA 180
RNKSLNLKHI KHFILDECDK MLEQLDMRRD VQEIFRMTPH EKQVMMFSAT LSKEIRPVCR 240
KFMQDPMEIF VDDETKLTLH GLQQYYVKLK DNEKNRKLFD LLDVLEFNQV VIFVKSVQRC 300
IALAQLLVEQ NFPAIAIHRG MPQEERLSRY QQFKDFQRRI LVATNLFGRG MDIERVNIAF 360
NYDMPEDSDT YLHRVARAGR FGTKGLAITF VSDENDAKIL NDVQDRFEVN ISELPDEIDI 420
SSYIEQTR 428 
Gene Ontology
 GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
 GO:0016607; C:nuclear speck; IEA:UniProtKB-SubCell.
 GO:0005681; C:spliceosomal complex; IDA:BHF-UCL.
 GO:0000346; C:transcription export complex; IDA:UniProtKB.
 GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
 GO:0043008; F:ATP-dependent protein binding; IDA:BHF-UCL.
 GO:0004004; F:ATP-dependent RNA helicase activity; IDA:UniProtKB.
 GO:0030621; F:U4 snRNA binding; IDA:BHF-UCL.
 GO:0017070; F:U6 snRNA binding; IDA:BHF-UCL.
 GO:0046784; P:intronless viral mRNA export from host nucleus; IDA:UniProtKB.
 GO:0010501; P:RNA secondary structure unwinding; IDA:BHF-UCL.
 GO:0000245; P:spliceosomal complex assembly; IDA:BHF-UCL. 
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