RH42_ORYSJ
ID RH42_ORYSJ Reviewed; 1049 AA.
AC Q84UQ1; B9FZ68;
DT 03-APR-2007, integrated into UniProtKB/Swiss-Prot.
DT 01-JUN-2003, sequence version 1.
DT 03-AUG-2022, entry version 111.
DE RecName: Full=DEAD-box ATP-dependent RNA helicase 42;
DE EC=3.6.4.13;
GN OrderedLocusNames=Os08g0159900, LOC_Os08g06344;
GN ORFNames=OsJ_26125 {ECO:0000312|EMBL:EEE68085.1}, P0498E12.131,
GN P0672D01.114;
OS Oryza sativa subsp. japonica (Rice).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX NCBI_TaxID=39947;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16100779; DOI=10.1038/nature03895;
RG International rice genome sequencing project (IRGSP);
RT "The map-based sequence of the rice genome.";
RL Nature 436:793-800(2005).
RN [2]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=18089549; DOI=10.1093/nar/gkm978;
RG The rice annotation project (RAP);
RT "The rice annotation project database (RAP-DB): 2008 update.";
RL Nucleic Acids Res. 36:D1028-D1033(2008).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT "Improvement of the Oryza sativa Nipponbare reference genome using next
RT generation sequence and optical map data.";
RL Rice 6:4-4(2013).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=15685292; DOI=10.1371/journal.pbio.0030038;
RA Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S.,
RA Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.,
RA Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J.,
RA Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X.,
RA Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y.,
RA Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L.,
RA Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H.,
RA Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z.,
RA Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L.,
RA Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F.,
RA Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q.,
RA Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J.,
RA Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M.,
RA McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.;
RT "The genomes of Oryza sativa: a history of duplications.";
RL PLoS Biol. 3:266-281(2005).
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=12869764; DOI=10.1126/science.1081288;
RG The rice full-length cDNA consortium;
RT "Collection, mapping, and annotation of over 28,000 cDNA clones from
RT japonica rice.";
RL Science 301:376-379(2003).
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 -!- 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 -!- SIMILARITY: Belongs to the DEAD box helicase family. DDX46/PRP5
CC subfamily. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AK102356; Type=Frameshift; Evidence={ECO:0000305};
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DR EMBL; AP004635; BAC66730.1; -; Genomic_DNA.
DR EMBL; AP004698; BAC99664.1; -; Genomic_DNA.
DR EMBL; AP008214; BAF22959.1; -; Genomic_DNA.
DR EMBL; AP014964; BAT03927.1; -; Genomic_DNA.
DR EMBL; CM000145; EEE68085.1; -; Genomic_DNA.
DR EMBL; AK102356; -; NOT_ANNOTATED_CDS; mRNA.
DR RefSeq; XP_015650120.1; XM_015794634.1.
DR AlphaFoldDB; Q84UQ1; -.
DR SMR; Q84UQ1; -.
DR STRING; 4530.OS08T0159900-01; -.
DR PaxDb; Q84UQ1; -.
DR PRIDE; Q84UQ1; -.
DR EnsemblPlants; Os08t0159900-01; Os08t0159900-01; Os08g0159900.
DR GeneID; 4344716; -.
DR Gramene; Os08t0159900-01; Os08t0159900-01; Os08g0159900.
DR KEGG; osa:4344716; -.
DR eggNOG; KOG0334; Eukaryota.
DR HOGENOM; CLU_003041_0_1_1; -.
DR InParanoid; Q84UQ1; -.
DR OMA; CGLGVQT; -.
DR OrthoDB; 245118at2759; -.
DR Proteomes; UP000000763; Chromosome 8.
DR Proteomes; UP000007752; Chromosome 8.
DR Proteomes; UP000059680; Chromosome 8.
DR ExpressionAtlas; Q84UQ1; baseline and differential.
DR Genevisible; Q84UQ1; OS.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
DR GO; GO:0016887; F:ATP hydrolysis activity; IEA:RHEA.
DR GO; GO:0003723; F:RNA binding; IEA:UniProtKB-KW.
DR GO; GO:0003724; F:RNA helicase activity; IEA:UniProtKB-EC.
DR GO; GO:0000398; P:mRNA splicing, via spliceosome; 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; 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 SUPFAM; SSF52540; SSF52540; 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 2: Evidence at transcript level;
KW ATP-binding; Coiled coil; Helicase; Hydrolase; Nucleotide-binding;
KW Reference proteome; RNA-binding.
FT CHAIN 1..1049
FT /note="DEAD-box ATP-dependent RNA helicase 42"
FT /id="PRO_0000282501"
FT DOMAIN 455..633
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT DOMAIN 644..805
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00542"
FT REGION 1..279
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 299..358
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 816..868
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COILED 1012..1037
FT /evidence="ECO:0000255"
FT MOTIF 424..452
FT /note="Q motif"
FT MOTIF 581..584
FT /note="DEAD box"
FT COMPBIAS 7..119
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 130..201
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 222..247
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 302..337
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 338..355
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 830..868
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 468..475
FT /ligand="ATP"
FT /ligand_id="ChEBI:CHEBI:30616"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT CONFLICT 159
FT /note="Q -> K (in Ref. 5; AK102356)"
FT /evidence="ECO:0000305"
FT CONFLICT 876
FT /note="A -> V (in Ref. 5; AK102356)"
FT /evidence="ECO:0000305"
FT CONFLICT 905
FT /note="S -> A (in Ref. 5; AK102356)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 1049 AA; 117731 MW; 3630C04ED415D215 CRC64;
MGSSDEAGSS KHHRRDKEKD RERSSSRHHR DRDRERSSSR HHHREDRDDD RDRDRDRERR
HREKERDREE RKAREREERE KEKERERARR REERDREERS RRREAAAEEE EEDVDRDRKR
RRRSSHHHHH HRDAEPEGPA SGAREEEVVD VEEAERRRQK KKEEEQKQLD EEMETRRRRI
KEWQEMKRRE EETKRREQEE AGVGTSAAAA AAPAEAEDGG NAGKKWTLDG EESDEEGNQE
DGKKSDDNGG SGAGAMDVDV PNGGDNANGA NAMDEDEIDP LDAFMNSMVL PEVAKLESMP
AANVDDKNDK SAKDAVTNGD KKGPKKVMGR IIQGEDSDSD YADDEDDEGG SEDEDDEEFM
KRVKKTKAEK LAIVDHSKID YQPFRKNFYI EVKDITKMAA EEVAAYRKQL ELKVHGKDVP
KPIKTWVQSG LTSKLLDTIK KLGFEKPMSI QAQALPIIMS GRDCIGIAKT GSGKTLAFVL
PMLRHVKDQP AVVPGDGPIG LIMAPTRELV VQIHSDIKKF SKALGINCVA IYGGSGVAQQ
ISELKRGAEI VVCTPGRMID ILCTSSGKIT NLRRVTFLVM DEADRMFDMG FEPQITRIVQ
NTRPDRQTVL FSATFPRQVE ILARKVLTKP VEIQVGGRSV VNKDITQLVE VRPENERFFR
LLELLGEWFD KGKILVFVHS QDKCDSLLKD LFQHGYPCLS LHGGKDQTDR ESTLADFKSN
VCSLLIATSV AARGLDVKEL ELVVNYDVPN HYEDYVHRVG RTGRAGRKGF AVTFISEEEE
RYAPDLVKAL ELSEQAVPED LKGLADRFMA KVKQGTEQAH GTGYGGSGFK FNEEEDEARK
SAKKAQAREY GYEEDKSDSD SDEEGGVRKA GGDLAAQAIA AAQAAAAMVA AKAASNANQQ
TQGTSVGPLL PLAIASNTQN NEATARALQA AFNIQQNLAR IQAHAVPEHY EAELEINDFP
QNARWKITHK ETLGPIQEWT GAAITTRGTF FPQGKIVGAN ERKLYLFIEG PTELSVKKAK
AELKRVLEDC ANHALNLPGS AQTGKYSVI
