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Probable ATP-dependent RNA helicase DDX60 (EC 3.6.4.13) (DEAD box protein 60)

 DDX60_HUMAN             Reviewed;        1712 AA.
Q8IY21; Q6PK35; Q9NVE3;
05-FEB-2008, integrated into UniProtKB/Swiss-Prot.
18-MAY-2010, sequence version 3.
12-SEP-2018, entry version 131.
RecName: Full=Probable ATP-dependent RNA helicase DDX60;
EC=3.6.4.13;
AltName: Full=DEAD box protein 60;
Name=DDX60;
Homo sapiens (Human).
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
Catarrhini; Hominidae; Homo.
NCBI_TaxID=9606;
[1]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
PubMed=15815621; DOI=10.1038/nature03466;
Hillier L.W., Graves T.A., Fulton R.S., Fulton L.A., Pepin K.H.,
Minx P., Wagner-McPherson C., Layman D., Wylie K., Sekhon M.,
Becker M.C., Fewell G.A., Delehaunty K.D., Miner T.L., Nash W.E.,
Kremitzki C., Oddy L., Du H., Sun H., Bradshaw-Cordum H., Ali J.,
Carter J., Cordes M., Harris A., Isak A., van Brunt A., Nguyen C.,
Du F., Courtney L., Kalicki J., Ozersky P., Abbott S., Armstrong J.,
Belter E.A., Caruso L., Cedroni M., Cotton M., Davidson T., Desai A.,
Elliott G., Erb T., Fronick C., Gaige T., Haakenson W., Haglund K.,
Holmes A., Harkins R., Kim K., Kruchowski S.S., Strong C.M.,
Grewal N., Goyea E., Hou S., Levy A., Martinka S., Mead K.,
McLellan M.D., Meyer R., Randall-Maher J., Tomlinson C.,
Dauphin-Kohlberg S., Kozlowicz-Reilly A., Shah N.,
Swearengen-Shahid S., Snider J., Strong J.T., Thompson J., Yoakum M.,
Leonard S., Pearman C., Trani L., Radionenko M., Waligorski J.E.,
Wang C., Rock S.M., Tin-Wollam A.-M., Maupin R., Latreille P.,
Wendl M.C., Yang S.-P., Pohl C., Wallis J.W., Spieth J., Bieri T.A.,
Berkowicz N., Nelson J.O., Osborne J., Ding L., Meyer R., Sabo A.,
Shotland Y., Sinha P., Wohldmann P.E., Cook L.L., Hickenbotham M.T.,
Eldred J., Williams D., Jones T.A., She X., Ciccarelli F.D.,
Izaurralde E., Taylor J., Schmutz J., Myers R.M., Cox D.R., Huang X.,
McPherson J.D., Mardis E.R., Clifton S.W., Warren W.C.,
Chinwalla A.T., Eddy S.R., Marra M.A., Ovcharenko I., Furey T.S.,
Miller W., Eichler E.E., Bork P., Suyama M., Torrents D.,
Waterston R.H., Wilson R.K.;
"Generation and annotation of the DNA sequences of human chromosomes 2
and 4.";
Nature 434:724-731(2005).
[2]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
TISSUE=Brain, and Uterus;
PubMed=15489334; DOI=10.1101/gr.2596504;
The MGC Project Team;
"The status, quality, and expansion of the NIH full-length cDNA
project: the Mammalian Gene Collection (MGC).";
Genome Res. 14:2121-2127(2004).
[3]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-1174.
PubMed=14702039; DOI=10.1038/ng1285;
Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R.,
Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H.,
Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.,
Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K.,
Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A.,
Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M.,
Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y.,
Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M.,
Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K.,
Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S.,
Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J.,
Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y.,
Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N.,
Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S.,
Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S.,
Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O.,
Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H.,
Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B.,
Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y.,
Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T.,
Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y.,
Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S.,
Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T.,
Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M.,
Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T.,
Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K.,
Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R.,
Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.;
"Complete sequencing and characterization of 21,243 full-length human
cDNAs.";
Nat. Genet. 36:40-45(2004).
[4]
FUNCTION, SUBCELLULAR LOCATION, INDUCTION, TISSUE SPECIFICITY, AND
INTERACTION WITH EXOSC1; EXOSC4; DDX58/RIG-I; IFIH1/MDA5; DHX58/LGP2.
PubMed=21791617; DOI=10.1128/MCB.01368-10;
Miyashita M., Oshiumi H., Matsumoto M., Seya T.;
"DDX60, a DEXD/H box helicase, is a novel antiviral factor promoting
RIG-I-like receptor-mediated signaling.";
Mol. Cell. Biol. 31:3802-3819(2011).
[5]
FUNCTION, AND INDUCTION.
PubMed=21478870; DOI=10.1038/nature09907;
Schoggins J.W., Wilson S.J., Panis M., Murphy M.Y., Jones C.T.,
Bieniasz P., Rice C.M.;
"A diverse range of gene products are effectors of the type I
interferon antiviral response.";
Nature 472:481-485(2011).
-!- FUNCTION: 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). {ECO:0000269|PubMed:21478870,
ECO:0000269|PubMed:21791617}.
-!- CATALYTIC ACTIVITY: ATP + H(2)O = ADP + phosphate.
-!- SUBUNIT: Interacts with EXOSC1, EXOSC4, DDX58/RIG-I, IFIH1/MDA5
and DHX58/LGP2. {ECO:0000269|PubMed:21791617}.
-!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000269|PubMed:21791617}.
-!- TISSUE SPECIFICITY: Brain, lymph node, prostate, stomach, thyroid,
tongue, trachea, uterus, skeletal muscle, spleen, kidney, liver
and small intestine. {ECO:0000269|PubMed:21791617}.
-!- INDUCTION: By interferon (IFN). Up-regulated during vesicular
stomatitis virus (VSV), or poliovirus (PV) infection.
{ECO:0000269|PubMed:21478870, ECO:0000269|PubMed:21791617}.
-!- SIMILARITY: Belongs to the helicase family. {ECO:0000305}.
-----------------------------------------------------------------------
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EMBL; AC068989; -; NOT_ANNOTATED_CDS; Genomic_DNA.
EMBL; BC007820; AAH07820.1; -; mRNA.
EMBL; BC038115; AAH38115.1; -; mRNA.
EMBL; AK001649; BAA91809.1; -; mRNA.
CCDS; CCDS34097.1; -.
RefSeq; NP_060101.3; NM_017631.5.
UniGene; Hs.591710; -.
ProteinModelPortal; Q8IY21; -.
SMR; Q8IY21; -.
BioGrid; 120742; 11.
IntAct; Q8IY21; 6.
STRING; 9606.ENSP00000377344; -.
iPTMnet; Q8IY21; -.
PhosphoSitePlus; Q8IY21; -.
BioMuta; DDX60; -.
DMDM; 296439377; -.
EPD; Q8IY21; -.
MaxQB; Q8IY21; -.
PaxDb; Q8IY21; -.
PeptideAtlas; Q8IY21; -.
PRIDE; Q8IY21; -.
ProteomicsDB; 71088; -.
Ensembl; ENST00000393743; ENSP00000377344; ENSG00000137628.
GeneID; 55601; -.
KEGG; hsa:55601; -.
UCSC; uc003irp.4; human.
CTD; 55601; -.
DisGeNET; 55601; -.
EuPathDB; HostDB:ENSG00000137628.16; -.
GeneCards; DDX60; -.
HGNC; HGNC:25942; DDX60.
HPA; HPA046952; -.
MIM; 613974; gene.
neXtProt; NX_Q8IY21; -.
OpenTargets; ENSG00000137628; -.
PharmGKB; PA162383444; -.
eggNOG; KOG0949; Eukaryota.
eggNOG; KOG0950; Eukaryota.
eggNOG; COG4581; LUCA.
GeneTree; ENSGT00820000127042; -.
HOGENOM; HOG000169263; -.
HOVERGEN; HBG107797; -.
InParanoid; Q8IY21; -.
KO; K20103; -.
OMA; FAQNSVY; -.
OrthoDB; EOG091G02TT; -.
PhylomeDB; Q8IY21; -.
TreeFam; TF314846; -.
ChiTaRS; DDX60; human.
GenomeRNAi; 55601; -.
PRO; PR:Q8IY21; -.
Proteomes; UP000005640; Chromosome 4.
Bgee; ENSG00000137628; Expressed in 208 organ(s), highest expression level in colon.
CleanEx; HS_DDX60; -.
ExpressionAtlas; Q8IY21; baseline and differential.
Genevisible; Q8IY21; HS.
GO; GO:0005737; C:cytoplasm; IDA:UniProtKB.
GO; GO:0005829; C:cytosol; IDA:HPA.
GO; GO:0045111; C:intermediate filament cytoskeleton; IDA:HPA.
GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
GO; GO:0003690; F:double-stranded DNA binding; IDA:UniProtKB.
GO; GO:0003725; F:double-stranded RNA binding; IDA:UniProtKB.
GO; GO:0004386; F:helicase activity; IEA:UniProtKB-KW.
GO; GO:0003727; F:single-stranded RNA binding; IDA:UniProtKB.
GO; GO:0051607; P:defense response to virus; IEA:UniProtKB-KW.
GO; GO:0045087; P:innate immune response; IEA:UniProtKB-KW.
GO; GO:1900245; P:positive regulation of MDA-5 signaling pathway; IMP:UniProtKB.
GO; GO:1900246; P:positive regulation of RIG-I signaling pathway; IMP:UniProtKB.
GO; GO:0009615; P:response to virus; IDA:UniProtKB.
CDD; cd00079; HELICc; 1.
InterPro; IPR011545; DEAD/DEAH_box_helicase_dom.
InterPro; IPR014001; Helicase_ATP-bd.
InterPro; IPR001650; Helicase_C.
InterPro; IPR027417; P-loop_NTPase.
Pfam; PF00270; DEAD; 1.
Pfam; PF00271; Helicase_C; 1.
SMART; SM00487; DEXDc; 1.
SMART; SM00490; HELICc; 1.
SUPFAM; SSF52540; SSF52540; 2.
PROSITE; PS51192; HELICASE_ATP_BIND_1; 1.
PROSITE; PS51194; HELICASE_CTER; 1.
1: Evidence at protein level;
Antiviral defense; ATP-binding; Complete proteome; Cytoplasm;
Helicase; Hydrolase; Immunity; Innate immunity; Nucleotide-binding;
Polymorphism; Reference proteome; RNA-binding.
CHAIN 1 1712 Probable ATP-dependent RNA helicase
DDX60.
/FTId=PRO_0000318154.
DOMAIN 772 939 Helicase ATP-binding.
{ECO:0000255|PROSITE-ProRule:PRU00541}.
DOMAIN 1226 1370 Helicase C-terminal.
{ECO:0000255|PROSITE-ProRule:PRU00542}.
NP_BIND 785 792 ATP. {ECO:0000255|PROSITE-
ProRule:PRU00541}.
MOTIF 889 892 DEVH box.
VARIANT 672 672 V -> M (in dbSNP:rs550625).
/FTId=VAR_055895.
VARIANT 998 998 I -> V (in dbSNP:rs576619).
/FTId=VAR_055896.
CONFLICT 415 415 V -> I (in Ref. 3; BAA91809).
{ECO:0000305}.
CONFLICT 439 439 E -> G (in Ref. 2; AAH38115).
{ECO:0000305}.
CONFLICT 731 731 V -> I (in Ref. 2; AAH38115).
{ECO:0000305}.
CONFLICT 1385 1385 A -> T (in Ref. 2; AAH38115).
{ECO:0000305}.
SEQUENCE 1712 AA; 197853 MW; 4F71D8E5A06D3EB9 CRC64;
MERNVLTTFS QEMSQLILNE MPKAEYSSLF NDFVESEFFL IDGDSLLITC ICEISFKPGQ
NLHFFYLVER YLVDLISKGG QFTIVFFKDA EYAYFNFPEL LSLRTALILH LQKNTTIDVR
TTFSRCLSKE WGSFLEESYP YFLIVADEGL NDLQTQLFNF LIIHSWARKV NVVLSSGQES
DVLCLYAYLL PSMYRHQIFS WKNKQNIKDA YTTLLNQLER FKLSALAPLF GSLKWNNITE
EAHKTVSLLT QVWPEGSDIR RVFCVTSCSL SLRMYHRFLG NREPSSGQET EIQQVNSNCL
TLQEMEDLCK LHCLTVVFLL HLPLSQRACA RVITSHWAED MKPLLQMKKW CEYFILRNIH
TFEFWNLNLI HLSDLNDELL LKNIAFYYEN ENVKGLHLNL GDTIMKDYEY LWNTVSKLVR
DFEVGQPFPL RTTKVCFLEK KPSPIKDSSN EMVPNLGFIP TSSFVVDKFA GDILKDLPFL
KSDDPIVTSL VKQKEFDELV HWHSHKPLSD DYDRSRCQFD EKSRDPRVLR SVQKYHVFQR
FYGNSLETVS SKIIVTQTIK SKKDFSGPKS KKAHETKAEI IARENKKRLF AREEQKEEQK
WNALSFSIEE QLKENLHSGI KSLEDFLKSC KSSCVKLQVE MVGLTACLKA WKEHCRSEEG
KTTKDLSIAV QVMKRIHSLM EKYSELLQED DRQLIARCLK YLGFDELASS LHPAQDAEND
VKVKKRNKYS VGIGPARFQL QYMGHYLIRD ERKDPDPRVQ DFIPDTWQRE LLDVVDKNES
AVIVAPTSSG KTYASYYCME KVLKESDDGV VVYVAPTKAL VNQVAATVQN RFTKNLPSGE
VLCGVFTREY RHDALNCQVL ITVPACFEIL LLAPHRQNWV KKIRYVIFDE VHCLGGEIGA
EIWEHLLVMI RCPFLALSAT ISNPEHLTEW LQSVKWYWKQ EDKIIENNTA SKRHVGRQAG
FPKDYLQVKQ SYKVRLVLYG ERYNDLEKHV CSIKHGDIHF DHFHPCAALT TDHIERYGFP
PDLTLSPRES IQLYDAMFQI WKSWPRAQEL CPENFIHFNN KLVIKKMDAR KYEESLKAEL
TSWIKNGNVE QARMVLQNLS PEADLSPENM ITMFPLLVEK LRKMEKLPAL FFLFKLGAVE
NAAESVSTFL KKKQETKRPP KADKEAHVMA NKLRKVKKSI EKQKIIDEKS QKKTRNVDQS
LIHEAEHDNL VKCLEKNLEI PQDCTYADQK AVDTETLQKV FGRVKFERKG EELKALAERG
IGYHHSAMSF KEKQLVEILF RKGYLRVVTA TGTLALGVNM PCKSVVFAQN SVYLDALNYR
QMSGRAGRRG QDLMGDVYFF DIPFPKIGKL IKSNVPELRG HFPLSITLVL RLMLLASKGD
DPEDAKAKVL SVLKHSLLSF KQPRVMDMLK LYFLFSLQFL VKEGYLDQEG NPMGFAGLVS
HLHYHEPSNL VFVSFLVNGL FHDLCQPTRK GSKHFSQDVM EKLVLVLAHL FGRRYFPPKF
QDAHFEFYQS KVFLDDLPED FSDALDEYNM KIMEDFTTFL RIVSKLADMN QEYQLPLSKI
KFTGKECEDS QLVSHLMSCK EGRVAISPFV CLSGNFDDDL LRLETPNHVT LGTIGVNRSQ
APVLLSQKFD NRGRKMSLNA YALDFYKHGS LIGLVQDNRM NEGDAYYLLK DFALTIKSIS
VSLRELCENE DDNVVLAFEQ LSTTFWEKLN KV


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