ID DDX42_HUMAN Reviewed; 938 AA. AC Q86XP3; A6NML1; A8KA43; O75619; Q68G51; Q96BK1; Q96HR7; Q9Y3V8; DT 06-MAR-2007, integrated into UniProtKB/Swiss-Prot. DT 01-JUN-2003, sequence version 1. DT 22-FEB-2012, entry version 82. DE RecName: Full=ATP-dependent RNA helicase DDX42; DE EC=3.6.4.13; DE AltName: Full=DEAD box protein 42; DE AltName: Full=RNA helicase-like protein; DE Short=RHELP; DE AltName: Full=RNA helicase-related protein; DE Short=RNAHP; DE AltName: Full=SF3b DEAD box protein; DE AltName: Full=Splicing factor 3B-associated 125 kDa protein; DE Short=SF3b125; GN Name=DDX42; OS Homo sapiens (Human). OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; OC Catarrhini; Hominidae; Homo. OX NCBI_TaxID=9606; RN [1] RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), AND TISSUE SPECIFICITY. RX MEDLINE=20193476; PubMed=10727850; DOI=10.1016/S0925-4439(00)00010-7; RA Suk K., Kim S., Kim Y.-H., Oh S.-H., Lee M.-K., Kim K.-W., Kim H.-D., RA Seo Y.-S., Lee M.-S.; RT "Identification of a novel human member of the DEAD box protein RT family."; RL Biochim. Biophys. Acta 1501:63-69(2000). RN [2] RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2). RA Ikeda A., Tsuritani K.; RT "Expression of RNA helicase-related protein in human hair follicle."; RL Submitted (DEC-1999) to the EMBL/GenBank/DDBJ databases. RN [3] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). RC TISSUE=Trachea; RX PubMed=14702039; DOI=10.1038/ng1285; RA Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., RA Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., RA Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S., RA Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., RA Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., RA Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., RA Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., RA Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., RA Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., RA Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., RA Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., RA Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., RA Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., RA Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., RA Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., RA Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., RA Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., RA Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., RA Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., RA Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., RA Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., RA Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., RA Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., RA Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., RA Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., RA Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., RA Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., RA Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.; RT "Complete sequencing and characterization of 21,243 full-length human RT cDNAs."; RL Nat. Genet. 36:40-45(2004). RN [4] RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. RX PubMed=16625196; DOI=10.1038/nature04689; RA Zody M.C., Garber M., Adams D.J., Sharpe T., Harrow J., Lupski J.R., RA Nicholson C., Searle S.M., Wilming L., Young S.K., Abouelleil A., RA Allen N.R., Bi W., Bloom T., Borowsky M.L., Bugalter B.E., Butler J., RA Chang J.L., Chen C.-K., Cook A., Corum B., Cuomo C.A., de Jong P.J., RA DeCaprio D., Dewar K., FitzGerald M., Gilbert J., Gibson R., RA Gnerre S., Goldstein S., Grafham D.V., Grocock R., Hafez N., RA Hagopian D.S., Hart E., Norman C.H., Humphray S., Jaffe D.B., RA Jones M., Kamal M., Khodiyar V.K., LaButti K., Laird G., Lehoczky J., RA Liu X., Lokyitsang T., Loveland J., Lui A., Macdonald P., Major J.E., RA Matthews L., Mauceli E., McCarroll S.A., Mihalev A.H., Mudge J., RA Nguyen C., Nicol R., O'Leary S.B., Osoegawa K., Schwartz D.C., RA Shaw-Smith C., Stankiewicz P., Steward C., Swarbreck D., RA Venkataraman V., Whittaker C.A., Yang X., Zimmer A.R., Bradley A., RA Hubbard T., Birren B.W., Rogers J., Lander E.S., Nusbaum C.; RT "DNA sequence of human chromosome 17 and analysis of rearrangement in RT the human lineage."; RL Nature 440:1045-1049(2006). RN [5] RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. RA Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., RA Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., RA Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., RA Hannenhalli S., Turner R., Yooseph S., Lu F., Nusskern D.R., RA Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., RA Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., RA Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., RA Venter J.C.; RL Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases. RN [6] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2). RC TISSUE=Eye, Pancreas, and Uterus; RX PubMed=15489334; DOI=10.1101/gr.2596504; RG The MGC Project Team; RT "The status, quality, and expansion of the NIH full-length cDNA RT project: the Mammalian Gene Collection (MGC)."; RL Genome Res. 14:2121-2127(2004). RN [7] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 574-938 (ISOFORMS 1/2). RC TISSUE=Uterus; RX PubMed=17974005; DOI=10.1186/1471-2164-8-399; RA Bechtel S., Rosenfelder H., Duda A., Schmidt C.P., Ernst U., RA Wellenreuther R., Mehrle A., Schuster C., Bahr A., Bloecker H., RA Heubner D., Hoerlein A., Michel G., Wedler H., Koehrer K., RA Ottenwaelder B., Poustka A., Wiemann S., Schupp I.; RT "The full-ORF clone resource of the German cDNA consortium."; RL BMC Genomics 8:399-399(2007). RN [8] RP IDENTIFICATION BY MASS SPECTROMETRY (ISOFORM 2), SUBCELLULAR LOCATION, RP AND IDENTIFICATION IN THE SF3B COMPLEX. RX MEDLINE=22220069; PubMed=12234937; DOI=10.1093/emboj/cdf480; RA Will C.L., Urlaub H., Achsel T., Gentzel M., Wilm M., Luehrmann R.; RT "Characterization of novel SF3b and 17S U2 snRNP proteins, including a RT human Prp5p homologue and an SF3b DEAD-box protein."; RL EMBO J. 21:4978-4988(2002). RN [9] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-10; SER-96; SER-109 AND RP SER-111, AND MASS SPECTROMETRY. RC TISSUE=Cervix carcinoma; RX PubMed=17081983; DOI=10.1016/j.cell.2006.09.026; RA Olsen J.V., Blagoev B., Gnad F., Macek B., Kumar C., Mortensen P., RA Mann M.; RT "Global, in vivo, and site-specific phosphorylation dynamics in RT signaling networks."; RL Cell 127:635-648(2006). RN [10] RP FUNCTION, RNA-BINDING, TISSUE SPECIFICITY, AND SUBCELLULAR LOCATION. RX PubMed=16397294; DOI=10.1093/nar/gkj403; RA Uhlmann-Schiffler H., Jalal C., Stahl H.; RT "Ddx42p -- a human DEAD box protein with RNA chaperone activities."; RL Nucleic Acids Res. 34:10-22(2006). RN [11] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-104; SER-109; SER-111; RP SER-185 AND SER-754, AND MASS SPECTROMETRY. RC TISSUE=Cervix carcinoma; RX PubMed=18669648; DOI=10.1073/pnas.0805139105; RA Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., RA Elledge S.J., Gygi S.P.; RT "A quantitative atlas of mitotic phosphorylation."; RL Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008). RN [12] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-185; SER-751 AND RP SER-754, AND MASS SPECTROMETRY. RC TISSUE=Embryonic kidney; RX PubMed=19413330; DOI=10.1021/ac9004309; RA Gauci S., Helbig A.O., Slijper M., Krijgsveld J., Heck A.J., RA Mohammed S.; RT "Lys-N and trypsin cover complementary parts of the phosphoproteome in RT a refined SCX-based approach."; RL Anal. Chem. 81:4493-4501(2009). RN [13] RP FUNCTION, INTERACTION WITH TP53BP2, AND SUBCELLULAR LOCATION. RX PubMed=19377511; DOI=10.1038/onc.2009.75; RA Uhlmann-Schiffler H., Kiermayer S., Stahl H.; RT "The DEAD box protein Ddx42p modulates the function of ASPP2, a RT stimulator of apoptosis."; RL Oncogene 28:2065-2073(2009). RN [14] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-109 AND SER-111, AND RP MASS SPECTROMETRY. RC TISSUE=Leukemic T-cell; RX PubMed=19690332; DOI=10.1126/scisignal.2000007; RA Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., RA Rodionov V., Han D.K.; RT "Quantitative phosphoproteomic analysis of T cell receptor signaling RT reveals system-wide modulation of protein-protein interactions."; RL Sci. Signal. 2:RA46-RA46(2009). RN [15] RP ACETYLATION [LARGE SCALE ANALYSIS] AT MET-1 AND LYS-5, AND MASS RP SPECTROMETRY. RX PubMed=19608861; DOI=10.1126/science.1175371; RA Choudhary C., Kumar C., Gnad F., Nielsen M.L., Rehman M., Walther T., RA Olsen J.V., Mann M.; RT "Lysine acetylation targets protein complexes and co-regulates major RT cellular functions."; RL Science 325:834-840(2009). RN [16] RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RX PubMed=21269460; DOI=10.1186/1752-0509-5-17; RA Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., RA Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J.; RT "Initial characterization of the human central proteome."; RL BMC Syst. Biol. 5:17-17(2011). CC -!- FUNCTION: ATP-dependent RNA helicase. Binds to partially double- CC stranded RNAs (dsRNAs) in order to unwind RNA secondary CC structures. Unwinding is promoted in the presence of single-strand CC binding proteins. Mediates also RNA duplex formation thereby CC displacing the single-strand RNA binding protein. ATP and ADP CC modulate its activity: ATP binding and hydrolysis by DDX42 CC triggers RNA strand separation, whereas the ADP-bound form of the CC protein triggers annealing of complementary RNA strands. Involved CC in the survival of cells by interacting with TP53BP2 and thereby CC counteracting the apoptosis-stimulating activity of TP53BP2. CC Relocalizes TP53BP2 to the cytoplasm. CC -!- CATALYTIC ACTIVITY: ATP + H(2)O = ADP + phosphate. CC -!- SUBUNIT: Component of splicing factor SF3B which is composed of at CC least eight subunits; SF3B1/SAP155/SF3B155, SF3B2/SAP145/SF3B155, CC SF3B3/SAP130/SF3B130, SF3B4/SAP49/SF3B49, SF3B14A, PHF5A/SF3B14B, CC SF3B10 and SF3B125. Interacts (via the C-terminus) with TP53BP2; CC the interaction is not inhibitied by TP53BP2 ubiquitination and is CC independent of p53/TP53. CC -!- SUBCELLULAR LOCATION: Cytoplasm. Nucleus speckle. Nucleus, Cajal CC body. Note=Isoform 2 is present in Cajal bodies (CBs) and nuclear CC speckles. CC -!- ALTERNATIVE PRODUCTS: CC Event=Alternative splicing; Named isoforms=2; CC Name=1; CC IsoId=Q86XP3-1; Sequence=Displayed; CC Name=2; CC IsoId=Q86XP3-2; Sequence=VSP_023518; CC -!- TISSUE SPECIFICITY: Expressed in several cell lines (at protein CC level). Expressed in liver, lung, tonsil, thymus, muscle and CC pancreatic islets. CC -!- SIMILARITY: Belongs to the DEAD box helicase family. DDX42 CC subfamily. CC -!- SIMILARITY: Contains 1 helicase ATP-binding domain. CC -!- SIMILARITY: Contains 1 helicase C-terminal domain. CC -!- SEQUENCE CAUTION: CC Sequence=AAC32396.1; Type=Frameshift; Positions=818; CC --------------------------------------------------------------------------- CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms CC Distributed under the Creative Commons Attribution (CC BY 4.0) License CC --------------------------------------------------------------------------- DR EMBL; AF083255; AAC32396.1; ALT_FRAME; mRNA. DR EMBL; AB036090; BAC66466.1; -; mRNA. DR EMBL; AK292908; BAF85597.1; -; mRNA. DR EMBL; AC015651; -; NOT_ANNOTATED_CDS; Genomic_DNA. DR EMBL; CH471109; EAW94277.1; -; Genomic_DNA. DR EMBL; BC008208; AAH08208.1; -; mRNA. DR EMBL; BC015505; AAH15505.1; -; mRNA. DR EMBL; BC078667; AAH78667.1; -; mRNA. DR EMBL; BC093081; AAH93081.1; -; mRNA. DR EMBL; AL050096; CAB43268.1; -; mRNA. DR EMBL; BK000566; DAA00077.1; -; mRNA. DR IPI; IPI00409671; -. DR IPI; IPI00829889; -. DR PIR; T08745; T08745. DR RefSeq; NP_031398.2; NM_007372.2. DR RefSeq; NP_987095.1; NM_203499.1. DR UniGene; Hs.702010; -. DR HSSP; P09052; 2DB3. DR ProteinModelPortal; Q86XP3; -. DR SMR; Q86XP3; 230-628. DR IntAct; Q86XP3; 4. DR MINT; MINT-1427725; -. DR STRING; Q86XP3; -. DR PhosphoSite; Q86XP3; -. DR DMDM; 74750541; -. DR PRIDE; Q86XP3; -. DR Ensembl; ENST00000359353; ENSP00000352308; ENSG00000198231. DR Ensembl; ENST00000389924; ENSP00000374574; ENSG00000198231. DR Ensembl; ENST00000457800; ENSP00000390121; ENSG00000198231. DR GeneID; 11325; -. DR KEGG; hsa:11325; -. DR UCSC; uc002jbu.1; human. DR CTD; 11325; -. DR GeneCards; GC17P061851; -. DR H-InvDB; HIX0014072; -. DR HGNC; HGNC:18676; DDX42. DR HPA; HPA023447; -. DR HPA; HPA023571; -. DR HPA; HPA025941; -. DR MIM; 613369; gene. DR neXtProt; NX_Q86XP3; -. DR PharmGKB; PA134875761; -. DR eggNOG; COG0513; -. DR GeneTree; ENSGT00610000086076; -. DR HOVERGEN; HBG081425; -. DR InParanoid; Q86XP3; -. DR KO; K12835; -. DR OMA; GANDGRN; -. DR OrthoDB; EOG47WNN9; -. DR PhylomeDB; Q86XP3; -. DR NextBio; 43019; -. DR ArrayExpress; Q86XP3; -. DR Bgee; Q86XP3; -. DR CleanEx; HS_DDX42; -. DR Genevestigator; Q86XP3; -. DR GO; GO:0015030; C:Cajal body; IEA:UniProtKB-SubCell. DR GO; GO:0005737; C:cytoplasm; IDA:UniProtKB. DR GO; GO:0016607; C:nuclear speck; IEA:UniProtKB-SubCell. DR GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW. DR GO; GO:0008026; F:ATP-dependent helicase activity; IEA:InterPro. DR GO; GO:0005515; F:protein binding; IPI:UniProtKB. DR GO; GO:0003723; F:RNA binding; IEA:UniProtKB-KW. DR GO; GO:0008104; P:protein localization; IDA:UniProtKB. DR GO; GO:0045767; P:regulation of anti-apoptosis; IMP:UniProtKB. DR InterPro; IPR014001; DEAD-like_helicase. DR InterPro; IPR011545; DNA/RNA_helicase_DEAD/DEAH_N. DR InterPro; IPR001650; Helicase_C. DR InterPro; IPR000629; RNA-helicase_DEAD-box_CS. DR InterPro; IPR014014; RNA_helicase_DEAD_Q_motif. DR Pfam; PF00270; DEAD; 1. DR Pfam; PF00271; Helicase_C; 1. DR SMART; SM00487; DEXDc; 1. DR SMART; SM00490; HELICc; 1. DR PROSITE; PS00039; DEAD_ATP_HELICASE; 1. DR PROSITE; PS51192; HELICASE_ATP_BIND_1; 1. DR PROSITE; PS51194; HELICASE_CTER; 1. DR PROSITE; PS51195; Q_MOTIF; 1. PE 1: Evidence at protein level; KW Acetylation; Alternative splicing; ATP-binding; Coiled coil; KW Complete proteome; Cytoplasm; Helicase; Hydrolase; Nucleotide-binding; KW Nucleus; Phosphoprotein; Reference proteome; RNA-binding. FT CHAIN 1 938 ATP-dependent RNA helicase DDX42. FT /FTId=PRO_0000280058. FT DOMAIN 284 459 Helicase ATP-binding. FT DOMAIN 487 632 Helicase C-terminal. FT NP_BIND 297 304 ATP (By similarity). FT REGION 738 833 Necessary for interaction with TP53BP2. FT COILED 116 157 Potential. FT MOTIF 253 281 Q motif. FT MOTIF 407 410 DEAD box. FT COMPBIAS 43 46 Poly-Ser. FT COMPBIAS 175 178 Poly-Glu. FT COMPBIAS 654 659 Poly-Gly. FT COMPBIAS 762 883 Gly-rich. FT COMPBIAS 819 871 His-rich. FT MOD_RES 1 1 N-acetylmethionine. FT MOD_RES 5 5 N6-acetyllysine. FT MOD_RES 10 10 Phosphothreonine. FT MOD_RES 96 96 Phosphoserine. FT MOD_RES 104 104 Phosphoserine. FT MOD_RES 109 109 Phosphoserine. FT MOD_RES 111 111 Phosphoserine. FT MOD_RES 185 185 Phosphoserine. FT MOD_RES 751 751 Phosphoserine. FT MOD_RES 754 754 Phosphoserine. FT VAR_SEQ 1 119 Missing (in isoform 2). FT /FTId=VSP_023518. SQ SEQUENCE 938 AA; 102975 MW; D89A252E095D8913 CRC64; MNWNKGGPGT KRGFGFGGFA ISAGKKEEPK LPQQSHSAFG ATSSSSGFGK SAPPQLPSFY KIGSKRANFD EENAYFEDEE EDSSNVDLPY IPAENSPTRQ QFHSKPVDSD SDDDPLEAFM AEVEDQAARD MKRLEEKDKE RKNVKGIRDD IEEEDDQEAY FRYMAENPTA GVVQEEEEDN LEYDSDGNPI APTKKIIDPL PPIDHSEIDY PPFEKNFYNE HEEITNLTPQ QLIDLRHKLN LRVSGAAPPR PGSSFAHFGF DEQLMHQIRK SEYTQPTPIQ CQGVPVALSG RDMIGIAKTG SGKTAAFIWP MLIHIMDQKE LEPGDGPIAV IVCPTRELCQ QIHAECKRFG KAYNLRSVAV YGGGSMWEQA KALQEGAEIV VCTPGRLIDH VKKKATNLQR VSYLVFDEAD RMFDMGFEYQ VRSIASHVRP DRQTLLFSAT FRKKIEKLAR DILIDPIRVV QGDIGEANED VTQIVEILHS GPSKWNWLTR RLVEFTSSGS VLLFVTKKAN AEELANNLKQ EGHNLGLLHG DMDQSERNKV ISDFKKKDIP VLVATDVAAR GLDIPSIKTV INYDVARDID THTHRIGRTG RAGEKGVAYT LLTPKDSNFA GDLVRNLEGA NQHVSKELLD LAMQNAWFRK SRFKGGKGKK LNIGGGGLGY RERPGLGSEN MDRGNNNVMS NYEAYKPSTG AMGDRLTAMK AAFQSQYKSH FVAASLSNQK AGSSAAGASG WTSAGSLNSV PTNSAQQGHN SPDSPVTSAA KGIPGFGNTG NISGAPVTYP SAGAQGVNNT ASGNNSREGT GGSNGKRERY TENRGSSRHS HGETGNRHSD SPRHGDGGRH GDGYRHPESS SRHTDGHRHG ENRHGGSAGR HGENRGANDG RNGESRKEAF NRESKMEPKM EPKVDSSKMD KVDSKTDKTA DGFAVPEPPK RKKSRWDS //