RDR2_ORYSJ
ID RDR2_ORYSJ Reviewed; 1136 AA.
AC Q7XM31; Q0JCJ6;
DT 07-JUL-2009, integrated into UniProtKB/Swiss-Prot.
DT 01-OCT-2003, sequence version 1.
DT 03-AUG-2022, entry version 97.
DE RecName: Full=Probable RNA-dependent RNA polymerase 2;
DE Short=OsRDR2;
DE EC=2.7.7.48;
GN Name=RDR2; OrderedLocusNames=Os04g0465700, LOC_Os04g39160;
GN ORFNames=OSJNBb0048E02.13;
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 MRNA] OF 760-1136.
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 [6]
RP GENE FAMILY, AND NOMENCLATURE.
RX PubMed=18826656; DOI=10.1186/1471-2164-9-451;
RA Kapoor M., Arora R., Lama T., Nijhawan A., Khurana J.P., Tyagi A.K.,
RA Kapoor S.;
RT "Genome-wide identification, organization and phylogenetic analysis of
RT dicer-like, argonaute and RNA-dependent RNA polymerase gene families and
RT their expression analysis during reproductive development and stress in
RT rice.";
RL BMC Genomics 9:451-451(2008).
CC -!- FUNCTION: Probably involved in the RNA silencing pathway and required
CC for the generation of small interfering RNAs (siRNAs). {ECO:0000250}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate +
CC RNA(n+1); Xref=Rhea:RHEA:21248, Rhea:RHEA-COMP:14527, Rhea:RHEA-
CC COMP:17342, ChEBI:CHEBI:33019, ChEBI:CHEBI:61557, ChEBI:CHEBI:140395;
CC EC=2.7.7.48;
CC -!- SIMILARITY: Belongs to the RdRP family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAF14941.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AL606653; CAE04828.1; -; Genomic_DNA.
DR EMBL; AP008210; BAF14941.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AP014960; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; AK064379; -; NOT_ANNOTATED_CDS; mRNA.
DR RefSeq; XP_015636884.1; XM_015781398.1.
DR AlphaFoldDB; Q7XM31; -.
DR SMR; Q7XM31; -.
DR STRING; 4530.OS04T0465700-01; -.
DR PaxDb; Q7XM31; -.
DR PRIDE; Q7XM31; -.
DR GeneID; 4336092; -.
DR KEGG; osa:4336092; -.
DR eggNOG; KOG0988; Eukaryota.
DR HOGENOM; CLU_001366_1_1_1; -.
DR InParanoid; Q7XM31; -.
DR OrthoDB; 63910at2759; -.
DR Proteomes; UP000000763; Chromosome 4.
DR Proteomes; UP000059680; Chromosome 4.
DR Genevisible; Q7XM31; OS.
DR GO; GO:0031380; C:nuclear RNA-directed RNA polymerase complex; IBA:GO_Central.
DR GO; GO:0003723; F:RNA binding; IEA:UniProtKB-KW.
DR GO; GO:0003968; F:RNA-directed 5'-3' RNA polymerase activity; IBA:GO_Central.
DR GO; GO:0030422; P:siRNA processing; IBA:GO_Central.
DR InterPro; IPR007855; RNA-dep_RNA_pol_euk-typ.
DR PANTHER; PTHR23079; PTHR23079; 1.
DR Pfam; PF05183; RdRP; 1.
PE 2: Evidence at transcript level;
KW Nucleotidyltransferase; Reference proteome; RNA-binding;
KW RNA-directed RNA polymerase; RNA-mediated gene silencing; Transferase.
FT CHAIN 1..1136
FT /note="Probable RNA-dependent RNA polymerase 2"
FT /id="PRO_0000378446"
FT REGION 965..989
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 967..981
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CONFLICT 993
FT /note="E -> G (in Ref. 5; AK064379)"
FT /evidence="ECO:0000305"
FT CONFLICT 1052
FT /note="A -> V (in Ref. 5; AK064379)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 1136 AA; 126925 MW; 308B542CCB45AB09 CRC64;
MPTAAAAATA SLRVSNIPPS AVAAELLAFF DSAVAVAGGA FACEIAAAHR GWLSRGHGTV
QFGSAAAAAA AAGLASSGRL PRFLGALLSV SPSPVDLLPR ASDLSLRAAG AGLVVGDRVA
ERVFEAADAW DGVRAEVIPG KRRVDLYLEH DSQRYKLEVL FEDMKDCLGC TLDGMGAILL
QLNYAPRIHT AISGPAVNSR FMDDRFHACK EDAKFSWVRA LDFTPNYSFG RCSTLVLKLG
KSALVSDILK SLPFSGNLGE LTMNSMDGVG ASSNVVPLVH CPRDYSVPYE VLFRLNSLMH
MGKIVAKHVN ADLFKALQEL PVDVSRRIFE KMHKLESTCY GPLQFIQQEA YSMKRSHNVL
LSNEGEGEGE RKLMKCYRVN ITPSKIFCFG PEEEVTNYVV KHHSAYASDF VRVTFVDEDW
SKLSSNAISA RIEQGFFSKP FKTGLYYRIL SILKKGFSIG PKNFEFLAFS ASQLRGNSVW
MFASNASLNA GGIRRWMGHF ENIRSVSKCA ARMGQLFSSS RQTFEVLRWD VEVIPDIEIT
TDGSKYIFSD GIGKISLRFA KRVAHHVGLD PTNLPSAFQI RYGGYKGVIA IDPMSSIDLS
LRPSMKKFES ESRMLNITSW SKSQPCYVNR EIISLLSTLG IRDEIFVAMQ QDEMRETEEM
LTNKEVALSV LGKLGGSETK TAVKMLLQGY EPSSEPYLSM ILKAHQENRL TDIRTRCKIH
VPKGRVLIGC LDETGVLEYG QVYIRITKNS KEQKDSNQSY FYNDDGKTAT VVGKVAITKN
PCLHPGDIRV LEAIYDPDLV GMVDCLVFPQ RGERPHPNEC SGGDLDGDLY FITWDDKLIP
EKVDTPMDYT ATRPRIMDHV VTLEEIQKHF VDYMINDSLG AISTAHLIHA DRSPLKARSP
ECLQLATLHS MAVDFAKTGA PAEMPRTLRP REYPDFMERW EKPMYISNGV LGKLYRSAMG
HMEKSGDSGA LSSSSAQPSP TYDPDLEVPG SDEFLQAAEE YYELYEEKLT TLMNYYRAEL
EDEILTGNIR NKMLYLKRDN KRYFEMKDRI VAAVDALHRE ARGWLLSSRK EEDASRMASA
WYRVTYHPDR RRGKRFWSFP WIACDNLLAI KASSQLRRRR QKDDDSTAVV QMDCSA
