Reviewed, UniProtKB/Swiss-Prot Q5QMN5 (RDR3_ORYSJ)

Names and origin

Protein names

Recommended name:
    Probable RNA-dependent RNA polymerase 3
      Short name=OsRDR3
    EC=2.7.7.48

Gene names

Name:	RDR3
Ordered Locus Names:	Os01g0197900, LOC_Os01g10130
ORF Names:	B1046G12.12, P0419B01.24, B1046G12.13, P0419B01.25, OsJ_00745

Organism

Oryza sativa subsp. japonica (Rice)

Taxonomic identifier

39947 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › Liliopsida › Poales › Poaceae › BEP clade › Ehrhartoideae › Oryzeae › Oryza

Protein attributes

Sequence length	1153 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at transcript level.

General annotation (Comments)

Function	Probably involved in the RNA silencing pathway and required for the generation of small interfering RNAs (siRNAs) By similarity.
Catalytic activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).
Tissue specificity	Expressed in shoot apical meristem (SAM) and panicles. Ref.6
Sequence similarities	Belongs to the RdRP family.
Sequence caution	The sequence BAD73220.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence BAD73221.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence BAD73327.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence BAD73328.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence BAF04217.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence EEE54052.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Biological process	RNA-mediated gene silencing
Ligand	RNA-binding
Molecular function	Nucleotidyltransferase RNA-directed RNA polymerase Transferase
Gene Ontology (GO)
Biological process	gene silencing by RNA Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	RNA binding Inferred from electronic annotation. Source: UniProtKB-KW RNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1153	1153	Probable RNA-dependent RNA polymerase 3		PRO_0000378447
Experimental info
	Sequence conflict	809	1	P → S in AK105570. Ref.5

Sequences

	Sequence		Length	Mass (Da)
	Q5QMN5-1 [UniParc]. Last modified July 7, 2009. Version 2. Checksum: ADC8D8BC66104694	FASTA	1,153	129,994
	10 20 30 40 50 60 MYNPIGSAEA REPAELPAAV AAELERLEGR LRQLAGAEAR RHLAVLGEAG AARVLRAVAE 70 80 90 100 110 120 SRRVRTLPGF IKYLAKREAA ITRRDARGVP TALSAPAFIS GPSREEESVY TQLFDNEVQM 130 140 150 160 170 180 YDQSPSNEMA TSLSNHGMVE VGSPNQQMPF HLHGNGGSVR QIARLVPQLA QLTVESPCGH 190 200 210 220 230 240 TSSVSQNQGC IEVGTPTQAM VSPGLNQMAL PCRCMPSGLQ NYIEIDSPIQ PMISTPRRVS 250 260 270 280 290 300 TPSSVQDISR LIENMAGPSV SPPSPITAMP QNPTTTCHTT DNALREAASP QMLALEELGF 310 320 330 340 350 360 RKIFMVFAYL ASEKIENVLS VDYIRSLKFL SMAQFESQIW RTFGHKYIAA SDRAKNLDSD 370 380 390 400 410 420 PGMTKVYHCN VAIRGDTVVK IFKGPYIENT RTHLQKVVGD DNVLVVKFMG KLSDTKTDFS 430 440 450 460 470 480 TYCEHYHKVA EDGIVLGLRR YRFFVYKDGG KEEKLKQEKI EDKNKCTSPV MCYFVRTESG 490 500 510 520 530 540 WNMDEPYILS GRTVGQAREL FMHISSAPTL AKYMARFALI LSKTITWDAD LSAVYVRRIK 550 560 570 580 590 600 DEPCMDRHGN VVHKDQEPLI HTDGTGLVSV DLALNCPTSI FKGKFLKPQP LLMQFRLFYN 610 620 630 640 650 660 GSAVKGTVLV DRRLPPATIL IRPSMVKIET HPELSGVRSV NSSEIVSARN AKKSLSGVQS 670 680 690 700 710 720 VNSFEIVSTS NRPRRTLTSR FLITLLCYGG VPEEYFLELL QSAIEGAENA CYDYEDALRI 730 740 750 760 770 780 AFSYADMEDS MSARMILSGI PLEESYLQHR LDFMAQQERK GIKQGKIPID ECYYLMDTTD 790 800 810 820 830 840 PTGTLRPNEV CVILENGQFS GDVLVYKHPG LHFGDIHVLK ATYIRDLEKE YVGYAKYAIL 850 860 870 880 890 900 FPISGPRSLA DEMANSDFDG DIYWVSKNPK LLEHFKPSEP WVQAIKPKKT KQKKPQDCNE 910 920 930 940 950 960 SKLERLLFHE FLKTRFTPSF ALGTAADSWL AYMDRLLTDS LDEIEKKLIE EKMLKLVDLY 970 980 990 1000 1010 1020 YLALDAPKTG NKVNIPSDLM VKQYPHFMGR SFSYHSSSIL GQIYDKAEDV ESLRSCNVQP 1030 1040 1050 1060 1070 1080 IGVSLLPCFM EREAPPAARH LWQHRYEEYL TDSTMLYRAM VDKEERNMKF QELYEKYKHM 1090 1100 1110 1120 1130 1140 LYDASEFEQT QRDPDDVFSE ACVIYQIVYE KARWSNDASR CGFAWKVAGR ALCHFYALKN 1150 EGDTALCSLP LLR

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The genome sequence and structure of rice chromosome 1." Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y., Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H., Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M., Okamoto M. , Ando T., Aoki H., Arita K., Hamada M., Harada C., Hijishita S., Honda M., Ichikawa Y., Idonuma A., Iijima M., Ikeda M., Ikeno M., Ito S., Ito T., Ito Y., Ito Y., Iwabuchi A., Kamiya K., Karasawa W., Katagiri S., Kikuta A., Kobayashi N., Kono I., Machita K., Maehara T., Mizuno H., Mizubayashi T., Mukai Y., Nagasaki H., Nakashima M., Nakama Y., Nakamichi Y., Nakamura M., Namiki N., Negishi M., Ohta I., Ono N., Saji S., Sakai K., Shibata M., Shimokawa T., Shomura A., Song J., Takazaki Y., Terasawa K., Tsuji K., Waki K., Yamagata H., Yamane H., Yoshiki S., Yoshihara R., Yukawa K., Zhong H., Iwama H., Endo T., Ito H., Hahn J.H., Kim H.-I., Eun M.-Y., Yano M., Jiang J., Gojobori T. Nature 420:312-316(2002) [PubMed: 12447438] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Nipponbare.
[2]	"The map-based sequence of the rice genome." International rice genome sequencing project (IRGSP) Nature 436:793-800(2005) [PubMed: 16100779] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Nipponbare.
[3]	"Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana." The rice annotation project (RAP) Genome Res. 17:175-183(2007) [PubMed: 17210932] [Abstract] Cited for: GENOME REANNOTATION. Strain: cv. Nipponbare.
[4]	"The genomes of Oryza sativa: a history of duplications." Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S., Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L. , Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J., Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X., Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y., Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L., Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H., Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z., Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L., Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F., Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q., Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J., Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M., McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H. PLoS Biol. 3:266-281(2005) [PubMed: 15685292] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Nipponbare.
[5]	"Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice." The rice full-length cDNA consortium Science 301:376-379(2003) [PubMed: 12869764] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 776-1153. Strain: cv. Nipponbare.
[6]	"Genome-wide identification, organization and phylogenetic analysis of dicer-like, argonaute and RNA-dependent RNA polymerase gene families and their expression analysis during reproductive development and stress in rice." Kapoor M., Arora R., Lama T., Nijhawan A., Khurana J.P., Tyagi A.K., Kapoor S. BMC Genomics 9:451-451(2008) [PubMed: 18826656] [Abstract] Cited for: TISSUE SPECIFICITY, GENE FAMILY, NOMENCLATURE.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AP003200 Genomic DNA. Translation: BAD73220.1. Sequence problems. AP003200 Genomic DNA. Translation: BAD73221.1. Sequence problems. AP003244 Genomic DNA. Translation: BAD73327.1. Sequence problems. AP003244 Genomic DNA. Translation: BAD73328.1. Sequence problems. AP008207 Genomic DNA. Translation: BAF04217.1. Sequence problems. CM000138 Genomic DNA. Translation: EEE54052.1. Sequence problems. AK105570 mRNA. No translation available.
RefSeq	NP_001042303.1.
UniGene	Os.32212
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4327335.
GenomeReviews	Gene locus RDR3 in contig AP008207_GR.
KEGG	osa:4327335.
Organism-specific databases
Gramene	Q5QMN5.
Phylogenomic databases
HOGENOM	HBG604218.
Family and domain databases
InterPro	IPR007855. RNA-dep_RNA_pol_euk-typ. [Graphical view]
PANTHER	PTHR23079. RNA-dep_RNA_pol_euk-typ. 1 hit.
Pfam	PF05183. RdRP. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RDR3_ORYSJ

Accession

Primary (citable) accession number: Q5QMN5
Secondary accession number(s): B9ETN1, Q5QMN6

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 7, 2009
Last sequence update:	July 7, 2009
Last modified:	December 15, 2009
This is version 18 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)