ID RH17_ORYSJ Reviewed; 591 AA.
AC Q0DLB9; B9FM36; Q65XW2; Q94HJ1;
DT 03-APR-2007, integrated into UniProtKB/Swiss-Prot.
DT 03-APR-2007, sequence version 2.
DT 24-JAN-2024, entry version 97.
DE RecName: Full=DEAD-box ATP-dependent RNA helicase 17 {ECO:0000305};
DE Short=OsRH17 {ECO:0000303|PubMed:25447922};
DE EC=3.6.4.13 {ECO:0000305};
GN Name=RH17 {ECO:0000303|PubMed:25447922};
GN OrderedLocusNames=Os05g0110500 {ECO:0000312|EMBL:BAS91915.1},
GN LOC_Os05g01990 {ECO:0000305};
GN ORFNames=OsJ_16855 {ECO:0000312|EMBL:EEE62071.1},
GN P0016H04.6 {ECO:0000312|EMBL:AAU44200.1};
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=16261349; DOI=10.1007/s00438-005-0039-y;
RA Cheng C.-H., Chung M.C., Liu S.-M., Chen S.-K., Kao F.Y., Lin S.-J.,
RA Hsiao S.-H., Tseng I.C., Hsing Y.-I.C., Wu H.-P., Chen C.-S., Shaw J.-F.,
RA Wu J., Matsumoto T., Sasaki T., Chen H.-C., Chow T.-Y.;
RT "A fine physical map of the rice chromosome 5.";
RL Mol. Genet. Genomics 274:337-345(2005).
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 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 [6]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
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).
RN [7]
RP FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, AND INDUCTION.
RX PubMed=25447922; DOI=10.1016/j.gene.2014.11.025;
RA Xu J., Liu C., Li M., Hu J., Zhu L., Zeng D., Yang Y., Peng Y., Ruan B.,
RA Guo L., Li H.;
RT "A rice DEAD-box RNA helicase protein, OsRH17, suppresses 16S ribosomal RNA
RT maturation in Escherichia coli.";
RL Gene 555:318-328(2015).
CC -!- FUNCTION: May play a role in organellar ribosome biogenesis and
CC suppress 16S rRNA maturation. {ECO:0000305|PubMed:25447922}.
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 Evidence={ECO:0000305};
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:25447922}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q0DLB9-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q0DLB9-2; Sequence=VSP_024167, VSP_024168;
CC -!- TISSUE SPECIFICITY: Expressed in flowers and pollen grains.
CC {ECO:0000269|PubMed:25447922}.
CC -!- INDUCTION: Induced by auxin (NAA), abscisic acid (ABA) and jasmonate
CC (JA). {ECO:0000269|PubMed:25447922}.
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 {ECO:0000305}.
CC -!- SIMILARITY: Belongs to the DEAD box helicase family. DDX31/DBP7
CC subfamily. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAK73153.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AK066175; Type=Erroneous termination; Note=Truncated C-terminus.; Evidence={ECO:0000305};
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DR EMBL; AC079022; AAK73153.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AC079356; AAU44200.1; -; Genomic_DNA.
DR EMBL; AP008211; BAF16354.2; -; Genomic_DNA.
DR EMBL; AP014961; BAS91914.1; -; Genomic_DNA.
DR EMBL; AP014961; BAS91915.1; -; Genomic_DNA.
DR EMBL; CM000142; EEE62071.1; -; Genomic_DNA.
DR EMBL; AK060179; -; NOT_ANNOTATED_CDS; mRNA.
DR EMBL; AK066175; -; NOT_ANNOTATED_CDS; mRNA.
DR RefSeq; XP_015640476.1; XM_015784990.1.
DR AlphaFoldDB; Q0DLB9; -.
DR SMR; Q0DLB9; -.
DR STRING; 39947.Q0DLB9; -.
DR PaxDb; 39947-Q0DLB9; -.
DR EnsemblPlants; Os05t0110500-01; Os05t0110500-01; Os05g0110500. [Q0DLB9-2]
DR EnsemblPlants; Os05t0110500-02; Os05t0110500-02; Os05g0110500. [Q0DLB9-1]
DR GeneID; 4337589; -.
DR Gramene; Os05t0110500-01; Os05t0110500-01; Os05g0110500. [Q0DLB9-2]
DR Gramene; Os05t0110500-02; Os05t0110500-02; Os05g0110500. [Q0DLB9-1]
DR KEGG; osa:4337589; -.
DR eggNOG; KOG0348; Eukaryota.
DR InParanoid; Q0DLB9; -.
DR OMA; AVHIKAD; -.
DR OrthoDB; 149428at2759; -.
DR Proteomes; UP000000763; Chromosome 5.
DR Proteomes; UP000007752; Chromosome 5.
DR Proteomes; UP000059680; Chromosome 5.
DR ExpressionAtlas; Q0DLB9; baseline and differential.
DR Genevisible; Q0DLB9; 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:0042254; P:ribosome biogenesis; IBA:GO_Central.
DR CDD; cd17949; DEADc_DDX31; 1.
DR CDD; cd18787; SF2_C_DEAD; 1.
DR Gene3D; 3.40.50.300; P-loop containing nucleotide triphosphate hydrolases; 2.
DR InterPro; IPR011545; DEAD/DEAH_box_helicase_dom.
DR InterPro; IPR025313; DUF4217.
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 PANTHER; PTHR24031:SF89; ATP-DEPENDENT RNA HELICASE DDX31-RELATED; 1.
DR PANTHER; PTHR24031; RNA HELICASE; 1.
DR Pfam; PF00270; DEAD; 1.
DR Pfam; PF13959; DUF4217; 1.
DR Pfam; PF00271; Helicase_C; 1.
DR SMART; SM00487; DEXDc; 1.
DR SMART; SM01178; DUF4217; 1.
DR SMART; SM00490; HELICc; 1.
DR SUPFAM; SSF52540; P-loop containing nucleoside triphosphate hydrolases; 2.
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; Nucleotide-binding;
KW Nucleus; Reference proteome; Ribosome biogenesis; RNA-binding.
FT CHAIN 1..591
FT /note="DEAD-box ATP-dependent RNA helicase 17"
FT /id="PRO_0000282495"
FT DOMAIN 55..248
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT DOMAIN 293..482
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00542"
FT REGION 562..591
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 23..52
FT /note="Q motif"
FT MOTIF 181..184
FT /note="DEAD box"
FT COMPBIAS 566..591
FT /note="Basic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 68..75
FT /ligand="ATP"
FT /ligand_id="ChEBI:CHEBI:30616"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT VAR_SEQ 428..434
FT /note="VGRTARI -> YLKHLPV (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:12869764"
FT /id="VSP_024167"
FT VAR_SEQ 435..591
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:12869764"
FT /id="VSP_024168"
FT CONFLICT 360
FT /note="Q -> R (in Ref. 6; AK066175)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 591 AA; 66904 MW; D0ACEFE4AD816DF1 CRC64;
MAKKLGKSPV AKEEDKEGLF ASCSFTDLGL HPTLCAHLQD KMGFQAPTRI QAQAIPVAMS
GQHMLVKAAT GTGKTLAYLA PIVHLLQMRE PRVERTDGTF ALVLVPTREL CLQVYGIAQQ
LVHRFHWLVP GYIMGGENRA KEKARLRKGI SILIATPGRL LDHLQHTSSF VYPNMRWIVF
DEADSILELG FGKALEDILE HLGSRNDTSN QNKNKMEPMK RQNLLLSATL NEKVNRLAKI
SLKNPVMIGL DEQNSSAHGK NHTSLLSDDE EEILEKHNVT VEQAVDDFKL PAQLVQRYVK
VSCGSRLAIL LTILKSLFER QLSHKVVVFL STCDSVDFHH TVLSQLEWSP GLQLDTDKKQ
KFISCKVFRL HGNMDQDDRK KSFLGFSSEK SAILVSTDVA ARGLDFPKVK CIIQYDSPGE
ASEYVHRVGR TARIGEKGEA LLFLQPIETD YLRDLELHGA SLTEYPLQKV LDSFPVNGQR
LHKRKQISLD MHPWIMSLQR ALESFVTSED TTKKLARDAF CSWVRAYTAH RGELKKIFMV
KKLHLGHVAR SFGLKEQPSL LGRSHQVQLK KRKKEQKRER PAKRRKIPAK R
//
