RH30_ORYSJ
ID RH30_ORYSJ Reviewed; 666 AA.
AC Q5N7W4; Q5N7W5;
DT 03-APR-2007, integrated into UniProtKB/Swiss-Prot.
DT 03-APR-2007, sequence version 2.
DT 03-AUG-2022, entry version 104.
DE RecName: Full=DEAD-box ATP-dependent RNA helicase 30;
DE EC=3.6.4.13;
GN OrderedLocusNames=Os01g0911100, LOC_Os01g68320;
GN ORFNames=P0456E05.41-1, P0456E05.41-2, P0470A12.9-1, P0470A12.9-2;
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=12447438; DOI=10.1038/nature01184;
RA Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y.,
RA Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H.,
RA Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M., Okamoto M.,
RA Ando T., Aoki H., Arita K., Hamada M., Harada C., Hijishita S., Honda M.,
RA Ichikawa Y., Idonuma A., Iijima M., Ikeda M., Ikeno M., Ito S., Ito T.,
RA Ito Y., Ito Y., Iwabuchi A., Kamiya K., Karasawa W., Katagiri S.,
RA Kikuta A., Kobayashi N., Kono I., Machita K., Maehara T., Mizuno H.,
RA Mizubayashi T., Mukai Y., Nagasaki H., Nakashima M., Nakama Y.,
RA Nakamichi Y., Nakamura M., Namiki N., Negishi M., Ohta I., Ono N., Saji S.,
RA Sakai K., Shibata M., Shimokawa T., Shomura A., Song J., Takazaki Y.,
RA Terasawa K., Tsuji K., Waki K., Yamagata H., Yamane H., Yoshiki S.,
RA Yoshihara R., Yukawa K., Zhong H., Iwama H., Endo T., Ito H., Hahn J.H.,
RA Kim H.-I., Eun M.-Y., Yano M., Jiang J., Gojobori T.;
RT "The genome sequence and structure of rice chromosome 1.";
RL Nature 420:312-316(2002).
RN [2]
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 [3]
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 [4]
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 [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 48-666 (ISOFORM 2), AND
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 471-666 (ISOFORM 1).
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 -!- FUNCTION: ATP-dependent RNA helicase involved nonsense-mediated mRNA
CC decay and ribosome biogenesis through rRNA processing. {ECO:0000250}.
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 -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q5N7W4-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q5N7W4-2; Sequence=VSP_024157, VSP_024158;
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. DDX5/DBP2
CC subfamily. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAD82339.1; Type=Erroneous initiation; Evidence={ECO:0000305};
CC Sequence=BAD82340.1; Type=Erroneous initiation; Evidence={ECO:0000305};
CC Sequence=BAD82427.1; Type=Erroneous initiation; Evidence={ECO:0000305};
CC Sequence=BAD82428.1; Type=Erroneous initiation; Evidence={ECO:0000305};
CC Sequence=BAF07072.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR EMBL; AP003416; BAD82339.1; ALT_INIT; Genomic_DNA.
DR EMBL; AP003416; BAD82340.1; ALT_INIT; Genomic_DNA.
DR EMBL; AP003436; BAD82427.1; ALT_INIT; Genomic_DNA.
DR EMBL; AP003436; BAD82428.1; ALT_INIT; Genomic_DNA.
DR EMBL; AP008207; BAF07072.1; ALT_INIT; Genomic_DNA.
DR EMBL; AP014957; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; AK062123; -; NOT_ANNOTATED_CDS; mRNA.
DR EMBL; AK064782; -; NOT_ANNOTATED_CDS; mRNA.
DR RefSeq; XP_015648572.1; XM_015793086.1. [Q5N7W4-1]
DR AlphaFoldDB; Q5N7W4; -.
DR SMR; Q5N7W4; -.
DR STRING; 4530.OS01T0911100-01; -.
DR PaxDb; Q5N7W4; -.
DR PRIDE; Q5N7W4; -.
DR GeneID; 9271802; -.
DR KEGG; osa:9271802; -.
DR eggNOG; KOG0331; Eukaryota.
DR HOGENOM; CLU_003041_16_9_1; -.
DR InParanoid; Q5N7W4; -.
DR OrthoDB; 638613at2759; -.
DR Proteomes; UP000000763; Chromosome 1.
DR Proteomes; UP000059680; Chromosome 1.
DR Genevisible; Q5N7W4; OS.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
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; IBA:GO_Central.
DR GO; GO:0003724; F:RNA helicase activity; IBA:GO_Central.
DR GO; GO:0000184; P:nuclear-transcribed mRNA catabolic process, nonsense-mediated decay; IEA:UniProtKB-KW.
DR GO; GO:0006364; P:rRNA processing; IEA:UniProtKB-KW.
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 Alternative splicing; ATP-binding; Helicase; Hydrolase;
KW Nonsense-mediated mRNA decay; Nucleotide-binding; Nucleus;
KW Reference proteome; Ribosome biogenesis; RNA-binding; rRNA processing.
FT CHAIN 1..666
FT /note="DEAD-box ATP-dependent RNA helicase 30"
FT /id="PRO_0000282456"
FT DOMAIN 282..457
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT DOMAIN 485..630
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00542"
FT REGION 53..102
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 632..666
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 251..279
FT /note="Q motif"
FT MOTIF 405..408
FT /note="DEAD box"
FT COMPBIAS 61..75
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 295..302
FT /ligand="ATP"
FT /ligand_id="ChEBI:CHEBI:30616"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT VAR_SEQ 561..572
FT /note="DVKDIKCVINFD -> GMVTCLKIRIRL (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:12869764"
FT /id="VSP_024157"
FT VAR_SEQ 573..666
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:12869764"
FT /id="VSP_024158"
SQ SEQUENCE 666 AA; 72189 MW; CE2E0EC31FC1EDAC CRC64;
MRTSRVASPP PSPKDHDTWA IATDLARPHT LRILTHQNQT TGLLTPPHAA FLPDPNLPRR
LPFPSSSSTP TAAAPPDSGE PSRARARTET YRTGDMNPYD LRYADPSSYR DRRSDLAGAP
VLAASAPAAA NPYAAAYAPA PAAPVAPAGG DFSRFGGRGR GGGAGGGGWG RGGGGGGGAG
GYRGGGGRGG GRDALDSLSL PKPDFRSLIP FEKNFYVECP AVQAMSDMDV SQYRRQRDIT
VEGHDVPKPV RYFQEANFPD YCMQAIAKSG FVEPTPIQSQ GWPMALKGRD MIGIAQTGSG
KTLSYLLPGL VHVGAQPRLE QGDGPIVLIL APTRELAVQI QQESGKFGSY SRTRSTCIYG
GAPKGPQIRD LRRGVEIVIA TPGRLIDMLE GGHTNLRRVT YLVLDEADRM LDMGFEPQIR
KIVAQIRPDR QTLYWSATWP REVESLARQF LQNPYKVIIG SPDLKANHSI QQIIEVISEH
EKYPRLSKLL SDLMDGSRIL IFFQTKKDCD KVTRQLRMDG WPALSIHGDK AQAERDYVLA
EFKSGKSPIM AATDVAARGL DVKDIKCVIN FDFPTTLEDY IHRIGRTGRA GASGTAFTFF
TLSNAKFSRN LVKILREAGQ VVNPALESMA KSASSMGGGN FRSRGRGGFG NRSGSNSIPI
RGRRPY
