ID DDX59_HUMAN Reviewed; 619 AA. AC Q5T1V6; Q6PJL2; Q8IVW3; Q9H0W3; DT 03-APR-2007, integrated into UniProtKB/Swiss-Prot. DT 21-DEC-2004, sequence version 1. DT 29-SEP-2021, entry version 155. DE RecName: Full=Probable ATP-dependent RNA helicase DDX59; DE EC=3.6.4.13; DE AltName: Full=DEAD box protein 59; DE AltName: Full=Zinc finger HIT domain-containing protein 5 {ECO:0000303|PubMed:28561026}; GN Name=DDX59; Synonyms=ZNHIT5 {ECO:0000303|PubMed:28561026}; OS Homo sapiens (Human). OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; OC Homo. OX NCBI_TaxID=9606; RN [1] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). RC TISSUE=Fetal brain; RX PubMed=11230166; DOI=10.1101/gr.gr1547r; RA Wiemann S., Weil B., Wellenreuther R., Gassenhuber J., Glassl S., RA Ansorge W., Boecher M., Bloecker H., Bauersachs S., Blum H., Lauber J., RA Duesterhoeft A., Beyer A., Koehrer K., Strack N., Mewes H.-W., RA Ottenwaelder B., Obermaier B., Tampe J., Heubner D., Wambutt R., Korn B., RA Klein M., Poustka A.; RT "Towards a catalog of human genes and proteins: sequencing and analysis of RT 500 novel complete protein coding human cDNAs."; RL Genome Res. 11:422-435(2001). RN [2] RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. RX PubMed=16710414; DOI=10.1038/nature04727; RA Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., RA Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., RA Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K., RA Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., RA Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., RA Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., RA Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., RA Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., RA Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., RA Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., RA Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., RA Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., RA Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., RA Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., RA Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., RA Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., RA Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., RA Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., RA Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., RA McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., RA Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., RA Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., RA Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., RA Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., RA Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., RA White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., RA Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., RA Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., RA Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.; RT "The DNA sequence and biological annotation of human chromosome 1."; RL Nature 441:315-321(2006). RN [3] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1), AND VARIANT ARG-472. RC TISSUE=Brain, and Lung; 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 project: RT the Mammalian Gene Collection (MGC)."; RL Genome Res. 14:2121-2127(2004). RN [4] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-64, AND IDENTIFICATION BY RP MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. 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 [5] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-160, AND IDENTIFICATION BY RP MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. 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 [6] RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RC TISSUE=Cervix carcinoma; RX PubMed=20068231; DOI=10.1126/scisignal.2000475; RA Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., RA Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M.; RT "Quantitative phosphoproteomics reveals widespread full phosphorylation RT site occupancy during mitosis."; RL Sci. Signal. 3:RA3-RA3(2010). RN [7] 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., Buerckstuemmer T., RA Bennett K.L., Superti-Furga G., Colinge J.; RT "Initial characterization of the human central proteome."; RL BMC Syst. Biol. 5:17-17(2011). RN [8] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-76; SER-156 AND SER-160, AND RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RC TISSUE=Cervix carcinoma, and Erythroleukemia; RX PubMed=23186163; DOI=10.1021/pr300630k; RA Zhou H., Di Palma S., Preisinger C., Peng M., Polat A.N., Heck A.J., RA Mohammed S.; RT "Toward a comprehensive characterization of a human cancer cell RT phosphoproteome."; RL J. Proteome Res. 12:260-271(2013). RN [9] RP INTERACTION WITH RUVBL1/RUVBL2 COMPLEX. RX PubMed=28561026; DOI=10.1038/ncomms15615; RA Cloutier P., Poitras C., Durand M., Hekmat O., Fiola-Masson E., RA Bouchard A., Faubert D., Chabot B., Coulombe B.; RT "R2TP/Prefoldin-like component RUVBL1/RUVBL2 directly interacts with ZNHIT2 RT to regulate assembly of U5 small nuclear ribonucleoprotein."; RL Nat. Commun. 8:15615-15615(2017). RN [10] RP SUMOYLATION [LARGE SCALE ANALYSIS] AT LYS-26, AND IDENTIFICATION BY MASS RP SPECTROMETRY [LARGE SCALE ANALYSIS]. RX PubMed=28112733; DOI=10.1038/nsmb.3366; RA Hendriks I.A., Lyon D., Young C., Jensen L.J., Vertegaal A.C., RA Nielsen M.L.; RT "Site-specific mapping of the human SUMO proteome reveals co-modification RT with phosphorylation."; RL Nat. Struct. Mol. Biol. 24:325-336(2017). RN [11] RP STRUCTURE BY NMR OF 94-146. RG RIKEN structural genomics initiative (RSGI); RT "Solution structure of the ZF-hit domain in DEAD (Asp-Glu-Ala-Asp) box RT polypeptide 59."; RL Submitted (FEB-2009) to the PDB data bank. RN [12] RP VARIANT [LARGE SCALE ANALYSIS] THR-77. RX PubMed=16959974; DOI=10.1126/science.1133427; RA Sjoeblom T., Jones S., Wood L.D., Parsons D.W., Lin J., Barber T.D., RA Mandelker D., Leary R.J., Ptak J., Silliman N., Szabo S., Buckhaults P., RA Farrell C., Meeh P., Markowitz S.D., Willis J., Dawson D., Willson J.K.V., RA Gazdar A.F., Hartigan J., Wu L., Liu C., Parmigiani G., Park B.H., RA Bachman K.E., Papadopoulos N., Vogelstein B., Kinzler K.W., RA Velculescu V.E.; RT "The consensus coding sequences of human breast and colorectal cancers."; RL Science 314:268-274(2006). RN [13] RP VARIANTS OFD5 GLY-367 AND ARG-534, CHARACTERIZATION OF VARIANT OFD5 RP GLY-367, SUBCELLULAR LOCATION, AND TISSUE SPECIFICITY. RX PubMed=23972372; DOI=10.1016/j.ajhg.2013.07.012; RA Shamseldin H.E., Rajab A., Alhashem A., Shaheen R., Al-Shidi T., Alamro R., RA Al Harassi S., Alkuraya F.S.; RT "Mutations in DDX59 implicate RNA helicase in the pathogenesis of RT orofaciodigital syndrome."; RL Am. J. Hum. Genet. 93:555-560(2013). CC -!- CATALYTIC ACTIVITY: CC Reaction=ATP + H2O = ADP + H(+) + phosphate; Xref=Rhea:RHEA:13065, CC ChEBI:CHEBI:15377, ChEBI:CHEBI:15378, ChEBI:CHEBI:30616, CC ChEBI:CHEBI:43474, ChEBI:CHEBI:456216; EC=3.6.4.13; CC -!- SUBUNIT: Interacts (via HIT-type zinc finger) with the RUVBL1/RUVBL2 CC complex in the presence of ADP. {ECO:0000269|PubMed:28561026}. CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000269|PubMed:23972372}. Nucleus CC {ECO:0000269|PubMed:23972372}. Note=Exhibits granular localization in CC the nucleus, as well as in the cytoplasm. CC -!- ALTERNATIVE PRODUCTS: CC Event=Alternative splicing; Named isoforms=2; CC Name=1; CC IsoId=Q5T1V6-1; Sequence=Displayed; CC Name=2; CC IsoId=Q5T1V6-2; Sequence=VSP_024227; CC -!- TISSUE SPECIFICITY: Expressed in fibroblasts (at protein level). CC {ECO:0000269|PubMed:23972372}. CC -!- DOMAIN: The Q motif is unique to and characteristic of the DEAD box CC family of RNA helicases and controls ATP binding and hydrolysis. CC -!- DISEASE: Orofaciodigital syndrome 5 (OFD5) [MIM:174300]: A form of CC orofaciodigital syndrome, a group of heterogeneous disorders CC characterized by malformations of the oral cavity, face and digits, and CC associated phenotypic abnormalities that lead to the delineation of CC various subtypes. OFD5 patients show the core features of cleft palate, CC lobulated tongue, and polydactyly. Additional features include frontal CC bossing and intellectual disability. {ECO:0000269|PubMed:23972372}. CC Note=The disease is caused by variants affecting the gene represented CC in this entry. CC -!- SIMILARITY: Belongs to the DEAD box helicase family. DDX59 subfamily. CC {ECO:0000305}. CC -!- SEQUENCE CAUTION: CC Sequence=AAH14183.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence starting in position 433.; Evidence={ECO:0000305}; 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; AL136611; CAB66546.1; -; mRNA. DR EMBL; AL445483; -; NOT_ANNOTATED_CDS; Genomic_DNA. DR EMBL; BC014183; AAH14183.1; ALT_SEQ; mRNA. DR EMBL; BC041801; AAH41801.1; -; mRNA. DR CCDS; CCDS30964.1; -. [Q5T1V6-1] DR RefSeq; NP_001026895.2; NM_001031725.5. [Q5T1V6-1] DR RefSeq; NP_001307110.1; NM_001320181.1. DR RefSeq; NP_001307111.1; NM_001320182.1. DR RefSeq; XP_011508337.1; XM_011510035.2. DR RefSeq; XP_016857920.1; XM_017002431.1. DR RefSeq; XP_016857921.1; XM_017002432.1. [Q5T1V6-1] DR PDB; 2YQP; NMR; -; A=94-146. DR PDBsum; 2YQP; -. DR SMR; Q5T1V6; -. DR BioGRID; 123664; 14. DR IntAct; Q5T1V6; 1. DR STRING; 9606.ENSP00000330460; -. DR GlyGen; Q5T1V6; 1 site, 1 O-linked glycan (1 site). DR iPTMnet; Q5T1V6; -. DR PhosphoSitePlus; Q5T1V6; -. DR BioMuta; DDX59; -. DR DMDM; 74762230; -. DR EPD; Q5T1V6; -. DR jPOST; Q5T1V6; -. DR MassIVE; Q5T1V6; -. DR MaxQB; Q5T1V6; -. DR PaxDb; Q5T1V6; -. DR PeptideAtlas; Q5T1V6; -. DR PRIDE; Q5T1V6; -. DR ProteomicsDB; 64290; -. [Q5T1V6-1] DR ProteomicsDB; 64291; -. [Q5T1V6-2] DR Antibodypedia; 34489; 246 antibodies. DR DNASU; 83479; -. DR Ensembl; ENST00000331314; ENSP00000330460; ENSG00000118197. [Q5T1V6-1] DR Ensembl; ENST00000447706; ENSP00000394367; ENSG00000118197. [Q5T1V6-2] DR GeneID; 83479; -. DR KEGG; hsa:83479; -. DR UCSC; uc009wzk.4; human. [Q5T1V6-1] DR CTD; 83479; -. DR DisGeNET; 83479; -. DR GeneCards; DDX59; -. DR HGNC; HGNC:25360; DDX59. DR HPA; ENSG00000118197; Low tissue specificity. DR MalaCards; DDX59; -. DR MIM; 174300; phenotype. DR MIM; 615464; gene. DR neXtProt; NX_Q5T1V6; -. DR OpenTargets; ENSG00000118197; -. DR Orphanet; 2919; Orofaciodigital syndrome type 5. DR PharmGKB; PA142672000; -. DR VEuPathDB; HostDB:ENSG00000118197; -. DR eggNOG; KOG0331; Eukaryota. DR GeneTree; ENSGT00940000158639; -. DR HOGENOM; CLU_003041_1_5_1; -. DR InParanoid; Q5T1V6; -. DR OMA; DESFCIR; -. DR OrthoDB; 400908at2759; -. DR PhylomeDB; Q5T1V6; -. DR TreeFam; TF330866; -. DR PathwayCommons; Q5T1V6; -. DR BioGRID-ORCS; 83479; 630 hits in 1019 CRISPR screens. DR ChiTaRS; DDX59; human. DR EvolutionaryTrace; Q5T1V6; -. DR GeneWiki; DDX59; -. DR GenomeRNAi; 83479; -. DR Pharos; Q5T1V6; Tbio. DR PRO; PR:Q5T1V6; -. DR Proteomes; UP000005640; Chromosome 1. DR RNAct; Q5T1V6; protein. DR Bgee; ENSG00000118197; Expressed in amniotic fluid and 228 other tissues. DR ExpressionAtlas; Q5T1V6; baseline and differential. DR Genevisible; Q5T1V6; HS. DR GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell. DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell. DR GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW. DR GO; GO:0140603; F:ATP hydrolysis activity; IEA:RHEA. DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW. DR GO; GO:0003723; F:RNA binding; IBA:GO_Central. DR GO; GO:0003724; F:RNA helicase activity; IBA:GO_Central. DR Gene3D; 3.40.50.300; -; 2. DR InterPro; IPR011545; DEAD/DEAH_box_helicase_dom. DR InterPro; IPR014001; Helicase_ATP-bd. DR InterPro; IPR001650; Helicase_C. DR InterPro; IPR027417; P-loop_NTPase. DR InterPro; IPR014014; RNA_helicase_DEAD_Q_motif. DR InterPro; IPR007529; Znf_HIT. DR Pfam; PF00270; DEAD; 1. DR Pfam; PF00271; Helicase_C; 1. DR Pfam; PF04438; zf-HIT; 1. DR SMART; SM00487; DEXDc; 1. DR SMART; SM00490; HELICc; 1. DR SUPFAM; SSF52540; SSF52540; 2. 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 3D-structure; Alternative splicing; ATP-binding; Ciliopathy; Cytoplasm; KW Disease variant; Helicase; Hydrolase; Isopeptide bond; Metal-binding; KW Nucleotide-binding; Nucleus; Phosphoprotein; Reference proteome; KW RNA-binding; Ubl conjugation; Zinc; Zinc-finger. FT CHAIN 1..619 FT /note="Probable ATP-dependent RNA helicase DDX59" FT /id="PRO_0000282713" FT DOMAIN 234..405 FT /note="Helicase ATP-binding" FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541" FT DOMAIN 416..579 FT /note="Helicase C-terminal" FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00542" FT ZN_FING 104..133 FT /note="HIT-type" FT NP_BIND 247..254 FT /note="ATP" FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541" FT REGION 57..98 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 142..161 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT MOTIF 203..231 FT /note="Q motif" FT MOTIF 353..356 FT /note="DEAD box" FT MOD_RES 64 FT /note="Phosphoserine" FT /evidence="ECO:0007744|PubMed:18669648" FT MOD_RES 76 FT /note="Phosphoserine" FT /evidence="ECO:0007744|PubMed:23186163" FT MOD_RES 156 FT /note="Phosphoserine" FT /evidence="ECO:0007744|PubMed:23186163" FT MOD_RES 160 FT /note="Phosphoserine" FT /evidence="ECO:0007744|PubMed:19690332, FT ECO:0007744|PubMed:23186163" FT CROSSLNK 26 FT /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with FT G-Cter in SUMO2)" FT /evidence="ECO:0007744|PubMed:28112733" FT VAR_SEQ 533..619 FT /note="IGRVGRLGQNGTAITFINNNSKRLFWDIAKRVKPTGSILPPQLLNSPYLHDQ FT KRKEQQKDKQTQNDLVTGANLMDIIRKHDKSNSQK -> ENTYKSTWRNPQHFQQDVRM FT TLGYVGKAQWEEDNQLKVKLGLKKNCSS (in isoform 2)" FT /evidence="ECO:0000303|PubMed:11230166" FT /id="VSP_024227" FT VARIANT 77 FT /note="P -> T (in a breast cancer sample; somatic FT mutation)" FT /evidence="ECO:0000269|PubMed:16959974" FT /id="VAR_035842" FT VARIANT 107 FT /note="I -> V (in dbSNP:rs3795634)" FT /id="VAR_031424" FT VARIANT 367 FT /note="V -> G (in OFD5; markedly reduced expression in FT fibroblasts compared to wild-type protein; impaired SHH FT signaling in SAG-treated fibroblasts; dbSNP:rs587777067)" FT /evidence="ECO:0000269|PubMed:23972372" FT /id="VAR_070198" FT VARIANT 472 FT /note="S -> R (in dbSNP:rs17854157)" FT /evidence="ECO:0000269|PubMed:15489334" FT /id="VAR_033001" FT VARIANT 534 FT /note="G -> R (in OFD5; dbSNP:rs886037652)" FT /evidence="ECO:0000269|PubMed:23972372" FT /id="VAR_070199" FT STRAND 109..113 FT /evidence="ECO:0007829|PDB:2YQP" FT STRAND 116..118 FT /evidence="ECO:0007829|PDB:2YQP" FT STRAND 120..122 FT /evidence="ECO:0007829|PDB:2YQP" FT STRAND 125..128 FT /evidence="ECO:0007829|PDB:2YQP" FT HELIX 129..143 FT /evidence="ECO:0007829|PDB:2YQP" SQ SEQUENCE 619 AA; 68810 MW; 2B4EE96C11CB48ED CRC64; MFVPRSLKIK RNANDDGKSC VAKIIKPDPE DLQLDKSRDV PVDAVATEAA TIDRHISESC PFPSPGGQLA EVHSVSPEQG AKDSHPSEEP VKSFSKTQRW AEPGEPICVV CGRYGEYICD KTDEDVCSLE CKAKHLLQVK EKEEKSKLSN PQKADSEPES PLNASYVYKE HPFILNLQED QIENLKQQLG ILVQGQEVTR PIIDFEHCSL PEVLNHNLKK SGYEVPTPIQ MQMIPVGLLG RDILASADTG SGKTAAFLLP VIMRALFESK TPSALILTPT RELAIQIERQ AKELMSGLPR MKTVLLVGGL PLPPQLYRLQ QHVKVIIATP GRLLDIIKQS SVELCGVKIV VVDEADTMLK MGFQQQVLDI LENIPNDCQT ILVSATIPTS IEQLASQLLH NPVRIITGEK NLPCANVRQI ILWVEDPAKK KKLFEILNDK KLFKPPVLVF VDCKLGADLL SEAVQKITGL KSISIHSEKS QIERKNILKG LLEGDYEVVV STGVLGRGLD LISVRLVVNF DMPSSMDEYV HQIGRVGRLG QNGTAITFIN NNSKRLFWDI AKRVKPTGSI LPPQLLNSPY LHDQKRKEQQ KDKQTQNDLV TGANLMDIIR KHDKSNSQK //