CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-017080
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Probable ATP-dependent RNA helicase DDX60 
Protein Synonyms/Alias
 DEAD box protein 60 
Gene Name
 DDX60 
Gene Synonyms/Alias
  
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
434PFPLRTTKVCFLEKKubiquitination[1]
440TKVCFLEKKPSPIKDacetylation[2]
475KFAGDILKDLPFLKSubiquitination[1]
481LKDLPFLKSDDPIVTubiquitination[1, 2]
534RVLRSVQKYHVFQRFubiquitination[1]
724AENDVKVKKRNKYSVubiquitination[1]
834TVQNRFTKNLPSGEVubiquitination[1, 2, 3]
988ERYNDLEKHVCSIKHubiquitination[1]
1065FNNKLVIKKMDARKYubiquitination[1]
1152SVSTFLKKKQETKRPubiquitination[1]
1216NLVKCLEKNLEIPQDubiquitination[1]
1230DCTYADQKAVDTETLubiquitination[1]
1239VDTETLQKVFGRVKFubiquitination[1]
1352PKIGKLIKSNVPELRubiquitination[1]
1628APVLLSQKFDNRGRKubiquitination[1]
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] 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] 
Functional Description
 Positively regulates DDX58/RIG-I- and IFIH1/MDA5- dependent type I interferon and interferon inducible gene expression in response to viral infection. Binds ssRNA, dsRNA and dsDNA and can promote the binding of DDX58/RIG-I to dsRNA. Exhibits antiviral activity against hepatitis C virus and vesicular stomatitis virus (VSV). 
Sequence Annotation
 DOMAIN 772 939 Helicase ATP-binding.
 DOMAIN 1226 1370 Helicase C-terminal.
 NP_BIND 785 792 ATP (By similarity).
 MOTIF 889 892 DEVH box.  
Keyword
 Antiviral defense; ATP-binding; Complete proteome; Cytoplasm; Helicase; Hydrolase; Immunity; Innate immunity; Nucleotide-binding; Polymorphism; Reference proteome; RNA-binding. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 1712 AA 
Protein Sequence
MERNVLTTFS QEMSQLILNE MPKAEYSSLF NDFVESEFFL IDGDSLLITC ICEISFKPGQ 60
NLHFFYLVER YLVDLISKGG QFTIVFFKDA EYAYFNFPEL LSLRTALILH LQKNTTIDVR 120
TTFSRCLSKE WGSFLEESYP YFLIVADEGL NDLQTQLFNF LIIHSWARKV NVVLSSGQES 180
DVLCLYAYLL PSMYRHQIFS WKNKQNIKDA YTTLLNQLER FKLSALAPLF GSLKWNNITE 240
EAHKTVSLLT QVWPEGSDIR RVFCVTSCSL SLRMYHRFLG NREPSSGQET EIQQVNSNCL 300
TLQEMEDLCK LHCLTVVFLL HLPLSQRACA RVITSHWAED MKPLLQMKKW CEYFILRNIH 360
TFEFWNLNLI HLSDLNDELL LKNIAFYYEN ENVKGLHLNL GDTIMKDYEY LWNTVSKLVR 420
DFEVGQPFPL RTTKVCFLEK KPSPIKDSSN EMVPNLGFIP TSSFVVDKFA GDILKDLPFL 480
KSDDPIVTSL VKQKEFDELV HWHSHKPLSD DYDRSRCQFD EKSRDPRVLR SVQKYHVFQR 540
FYGNSLETVS SKIIVTQTIK SKKDFSGPKS KKAHETKAEI IARENKKRLF AREEQKEEQK 600
WNALSFSIEE QLKENLHSGI KSLEDFLKSC KSSCVKLQVE MVGLTACLKA WKEHCRSEEG 660
KTTKDLSIAV QVMKRIHSLM EKYSELLQED DRQLIARCLK YLGFDELASS LHPAQDAEND 720
VKVKKRNKYS VGIGPARFQL QYMGHYLIRD ERKDPDPRVQ DFIPDTWQRE LLDVVDKNES 780
AVIVAPTSSG KTYASYYCME KVLKESDDGV VVYVAPTKAL VNQVAATVQN RFTKNLPSGE 840
VLCGVFTREY RHDALNCQVL ITVPACFEIL LLAPHRQNWV KKIRYVIFDE VHCLGGEIGA 900
EIWEHLLVMI RCPFLALSAT ISNPEHLTEW LQSVKWYWKQ EDKIIENNTA SKRHVGRQAG 960
FPKDYLQVKQ SYKVRLVLYG ERYNDLEKHV CSIKHGDIHF DHFHPCAALT TDHIERYGFP 1020
PDLTLSPRES IQLYDAMFQI WKSWPRAQEL CPENFIHFNN KLVIKKMDAR KYEESLKAEL 1080
TSWIKNGNVE QARMVLQNLS PEADLSPENM ITMFPLLVEK LRKMEKLPAL FFLFKLGAVE 1140
NAAESVSTFL KKKQETKRPP KADKEAHVMA NKLRKVKKSI EKQKIIDEKS QKKTRNVDQS 1200
LIHEAEHDNL VKCLEKNLEI PQDCTYADQK AVDTETLQKV FGRVKFERKG EELKALAERG 1260
IGYHHSAMSF KEKQLVEILF RKGYLRVVTA TGTLALGVNM PCKSVVFAQN SVYLDALNYR 1320
QMSGRAGRRG QDLMGDVYFF DIPFPKIGKL IKSNVPELRG HFPLSITLVL RLMLLASKGD 1380
DPEDAKAKVL SVLKHSLLSF KQPRVMDMLK LYFLFSLQFL VKEGYLDQEG NPMGFAGLVS 1440
HLHYHEPSNL VFVSFLVNGL FHDLCQPTRK GSKHFSQDVM EKLVLVLAHL FGRRYFPPKF 1500
QDAHFEFYQS KVFLDDLPED FSDALDEYNM KIMEDFTTFL RIVSKLADMN QEYQLPLSKI 1560
KFTGKECEDS QLVSHLMSCK EGRVAISPFV CLSGNFDDDL LRLETPNHVT LGTIGVNRSQ 1620
APVLLSQKFD NRGRKMSLNA YALDFYKHGS LIGLVQDNRM NEGDAYYLLK DFALTIKSIS 1680
VSLRELCENE DDNVVLAFEQ LSTTFWEKLN KV 1712 
Gene Ontology
 GO:0005737; C:cytoplasm; IDA:UniProtKB.
 GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
 GO:0008026; F:ATP-dependent helicase activity; IEA:InterPro.
 GO:0003690; F:double-stranded DNA binding; IDA:UniProtKB.
 GO:0003725; F:double-stranded RNA binding; IDA:UniProtKB.
 GO:0003727; F:single-stranded RNA binding; IDA:UniProtKB.
 GO:0051607; P:defense response to virus; IEA:UniProtKB-KW.
 GO:0045087; P:innate immune response; IEA:UniProtKB-KW.
 GO:1900245; P:positive regulation of MDA-5 signaling pathway; IMP:UniProtKB.
 GO:1900246; P:positive regulation of RIG-I signaling pathway; IMP:UniProtKB.
 GO:0009615; P:response to virus; IDA:UniProtKB. 
Interpro
 IPR011545; DNA/RNA_helicase_DEAD/DEAH_N.
 IPR014001; Helicase_ATP-bd.
 IPR001650; Helicase_C.
 IPR027417; P-loop_NTPase. 
Pfam
 PF00270; DEAD
 PF00271; Helicase_C 
SMART
 SM00487; DEXDc
 SM00490; HELICc 
PROSITE
 PS51192; HELICASE_ATP_BIND_1
 PS51194; HELICASE_CTER 
PRINTS