RH13_ORYSJ
ID RH13_ORYSJ Reviewed; 832 AA.
AC A3AVH5; A0A0N7KJC5; Q01HE8; Q7XQ07;
DT 11-SEP-2007, integrated into UniProtKB/Swiss-Prot.
DT 11-SEP-2007, sequence version 2.
DT 03-AUG-2022, entry version 87.
DE RecName: Full=DEAD-box ATP-dependent RNA helicase 13;
DE EC=3.6.4.13;
GN OrderedLocusNames=Os04g0510400, LOC_Os04g43140;
GN ORFNames=OsJ_014797, OSJNBb0065L13.12;
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=12447439; DOI=10.1038/nature01183;
RA Feng Q., Zhang Y., Hao P., Wang S., Fu G., Huang Y., Li Y., Zhu J., Liu Y.,
RA Hu X., Jia P., Zhang Y., Zhao Q., Ying K., Yu S., Tang Y., Weng Q.,
RA Zhang L., Lu Y., Mu J., Lu Y., Zhang L.S., Yu Z., Fan D., Liu X., Lu T.,
RA Li C., Wu Y., Sun T., Lei H., Li T., Hu H., Guan J., Wu M., Zhang R.,
RA Zhou B., Chen Z., Chen L., Jin Z., Wang R., Yin H., Cai Z., Ren S., Lv G.,
RA Gu W., Zhu G., Tu Y., Jia J., Zhang Y., Chen J., Kang H., Chen X., Shao C.,
RA Sun Y., Hu Q., Zhang X., Zhang W., Wang L., Ding C., Sheng H., Gu J.,
RA Chen S., Ni L., Zhu F., Chen W., Lan L., Lai Y., Cheng Z., Gu M., Jiang J.,
RA Li J., Hong G., Xue Y., Han B.;
RT "Sequence and analysis of rice chromosome 4.";
RL Nature 420:316-320(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 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].
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. DDX24/MAK5
CC subfamily. {ECO:0000305}.
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DR EMBL; AL606607; CAE03369.1; -; Genomic_DNA.
DR EMBL; AP008210; BAF15200.1; -; Genomic_DNA.
DR EMBL; AP014960; BAS90033.1; -; Genomic_DNA.
DR EMBL; CM000141; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; AK072655; -; NOT_ANNOTATED_CDS; mRNA.
DR RefSeq; XP_015635675.1; XM_015780189.1.
DR AlphaFoldDB; A3AVH5; -.
DR SMR; A3AVH5; -.
DR STRING; 4530.OS04T0510400-01; -.
DR PaxDb; A3AVH5; -.
DR PRIDE; A3AVH5; -.
DR EnsemblPlants; Os04t0510400-01; Os04t0510400-01; Os04g0510400.
DR GeneID; 4336370; -.
DR Gramene; Os04t0510400-01; Os04t0510400-01; Os04g0510400.
DR KEGG; osa:4336370; -.
DR eggNOG; KOG0347; Eukaryota.
DR HOGENOM; CLU_003041_13_0_1; -.
DR InParanoid; A3AVH5; -.
DR OMA; HYHVPRT; -.
DR OrthoDB; 973872at2759; -.
DR Proteomes; UP000000763; Chromosome 4.
DR Proteomes; UP000007752; Chromosome 4.
DR Proteomes; UP000059680; Chromosome 4.
DR ExpressionAtlas; A3AVH5; baseline and differential.
DR Genevisible; A3AVH5; OS.
DR GO; GO:0005730; C:nucleolus; 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 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; Helicase; Hydrolase; Nucleotide-binding; Reference proteome;
KW RNA-binding.
FT CHAIN 1..832
FT /note="DEAD-box ATP-dependent RNA helicase 13"
FT /id="PRO_0000282483"
FT DOMAIN 230..447
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT DOMAIN 484..645
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00542"
FT REGION 1..59
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 91..173
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 800..832
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 198..226
FT /note="Q motif"
FT MOTIF 371..374
FT /note="DEAD box"
FT COMPBIAS 1..17
FT /note="Pro residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 802..816
FT /note="Basic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 817..832
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 243..250
FT /ligand="ATP"
FT /ligand_id="ChEBI:CHEBI:30616"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00541"
FT CONFLICT 131
FT /note="E -> G (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 180
FT /note="N -> D (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 187
FT /note="N -> H (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 204
FT /note="R -> K (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 240
FT /note="I -> M (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 253
FT /note="F -> L (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 283
FT /note="S -> F (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 321
FT /note="I -> L (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 357
FT /note="Q -> P (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 386
FT /note="Q -> P (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 401
FT /note="Q -> P (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 409
FT /note="C -> G (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 498
FT /note="D -> Y (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
FT CONFLICT 728
FT /note="F -> S (in Ref. 6; AK072655)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 832 AA; 93309 MW; 78D7553345F03CBA CRC64;
MAAAPPPPPP PQLQSSDPST PPQETSQVRK GKKSRGAKKP RRAAAAAAAS TSSAGTMVED
PFLVLAGGKE GGFLELEEID EADFGIFGGA VEDLGEIDRK AGKDQKKKKR KKRKRGDDDY
ALPGDGDLVV ECEEEGEKGE KRVKKKRRSR KKRKVKEMEE KMESKEDVSD DNVEDMQDGN
DMEQDNNDGL ILGEDEVYAW RELRLHPLLI TAVRRLGFKE PTPIQKACFP AAAHQGKDVI
GAAETGSGKT LAFGLPILQR LLEEQEKAMR LSREDESTQD ENSRESPLRA LILTPTRELA
KQVCDHLKEA AKFLRIQVVP IVGGLSMEKQ ERLLKRKPEI VVGTPGRLWE LMSTGNQHLI
KLHSLSFFVL DEADRMIERG HFHELQSIIE MLPVTNGSDE QTVGTTPSCE TVPILQIKKR
QTFVFSATLA LSANFRKKLK RGLVTAKASA STDLSSIEAL SKQARMKPNA EIVDLTKASI
LPEKLEESFI ECSDDDKDAY LYYILSVHGQ GRTIIFCTSI AALRHLSSIL RVLGINVLTN
HAQMQQRARM KAVDRFRESE NSILVATDGF ARGMDFDDVR TVIHYQLPHS TDVYIHRSGR
TARKSMAGCS IALISPADKA KFYSLCKSLS KENLQQFPVD HAYMPAVMNR LTLARQIDKI
TRKNSQENAN KSWLQRNAES MGLLLETSDS EEERVQGHKQ RKATSANLQK LQQDLSELLQ
RPLQPKTFSR RYLAGAGVSP LLQKQLEELS KRNVKGSASV NANKGSRFVV IGQDQIEPLQ
ALQNSGQEVC VSIDKQREKR RLAENWRRKK QKEKKSTREQ KRKEKRIAKE RD
