Reviewed, UniProtKB/Swiss-Prot Q5QMN4 (RDR4_ORYSJ)

Names and origin

Protein names

Recommended name:
    Probable RNA-dependent RNA polymerase 4
      Short name=OsRDR4
    EC=2.7.7.48

Gene names

Name:	RDR4
Ordered Locus Names:	Os01g0198000, LOC_Os01g10140
ORF Names:	B1046G12.14, P0419B01.26

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	1183 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.5
Sequence similarities	Belongs to the RdRP family.
Sequence caution	The sequence BAD73222.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence BAD73329.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence BAF04218.1 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 – 1183	1183	Probable RNA-dependent RNA polymerase 4		PRO_0000378448

Sequences

	Sequence		Length	Mass (Da)
	Q5QMN4-1 [UniParc]. Last modified July 7, 2009. Version 2. Checksum: 291AAA377BC1D134	FASTA	1,183	132,399
	10 20 30 40 50 60 MNPHGGGNQM REPALPAAVG AELERLEARL GQLACAEARR QLAELGEPAA ARVLRAIGEA 70 80 90 100 110 120 RQVRTLSGFI RHMANQERMK RNARGIPTAH SAACISGPCR EEESISTPLY YNEVQMDAQT 130 140 150 160 170 180 PNDMVEVGSP NQQMPLRLHD NGGSVGHIAR VVPDLANPAV GSPYGRISSV LLQNQNCVEG 190 200 210 220 230 240 YTPSRGMVSP ASNQVGSPGH RMPSGLQRHM EIDSPIQPIV STPERVSTPS PVRDLSRCVE 250 260 270 280 290 300 NMAGPSGSPP CPIWVMPQIP PAICPDTTNV LREVVSPQML ALGELEFRKI FMIFAYLSWN 310 320 330 340 350 360 KKGVKPPLST PKSSKIEDVL SVDSIRSLKS MSMAQFESRI WSTFGHDNIS SSDRAKNLDS 370 380 390 400 410 420 GPGMSKVYHC NVEIRGGTVV KIFKGPYIEN RRTHLQKVLG DDNVLVVKFM EISSDTETDL 430 440 450 460 470 480 STYLEHYHKV AEEGIVLGLR CYRFFLYKDG GKENKMKEEN REEENKKCTS SVRCYFVRTE 490 500 510 520 530 540 SGWNMDEPYI LSGRTIGQAR DLFMHIRTVL TLAKYMLRFA LIVSKTITLD VDLSEVLVKL 550 560 570 580 590 600 IDDEPCLDEH GKEVFRDGER LIHTDGTGLI SEDLAQKCTY SNSKGKLLEP QDIVDCAASK 610 620 630 640 650 660 LMGSNNTTEY PLLIQLRLFY NGSAVKGTVL VDKRLPPRTI HIRPSMLKIK TYPELSGVQS 670 680 690 700 710 720 VNSLDIVSAR NAKKSLSGVQ SVNSFEIVST SNRSGRTFTS NNLIALLHYG GVPEEFFMEL 730 740 750 760 770 780 LQTAIEEADN ARFDYAGALN IAFNYADMED SMPARMILSG IPLEESYLQS RLDFLSLLER 790 800 810 820 830 840 KGIKNGKIPI DDCYYLMGTA DPTGKLGPNE VCVILDYGQV SGDVLVYKYP GLHPGDIHVL 850 860 870 880 890 900 KATYSSDIEK VVGNSKHAIL FPTTGQRSLA DEMANSDFDG DIYWVSLNPK LLEHFKPSKP 910 920 930 940 950 960 WVPAITPNGT KQKGPEDFNE SELERVLFHE FLKTRFAPSY ARATAATNWL VYMDRLLTVS 970 980 990 1000 1010 1020 LDESEKKLIE KKMLKLVDLY YLALDAPKMG NKVNIPRDLM VKQYPHFMDR SPSYHSSSIL 1030 1040 1050 1060 1070 1080 GKIYDKAGDP KPLRSDNVQP TSISSLPCFA ERDVPPAIKQ LWQHRYNEYL ADSSLLYAEE 1090 1100 1110 1120 1130 1140 ADEEEKKIKF QELYEKYKHL LYGASEFEET PRDLDDVFSE ACAIYQIAYE KARSANNVAR 1150 1160 1170 1180 CGFAWKVAGR ALCHFYTVKN EGNAVVCSLQ LLRNFRFTKK YRK

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]	"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 1-456 AND 588-1183. Strain: cv. Nipponbare.
[5]	"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: BAD73222.1. Sequence problems. AP003244 Genomic DNA. Translation: BAD73329.1. Sequence problems. AP008207 Genomic DNA. Translation: BAF04218.1. Sequence problems. AK064209 mRNA. Translation: BAG89036.1. Different initiation. AK119908 mRNA. No translation available.
RefSeq	NP_001042304.1.
UniGene	Os.2202
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4327336.
GenomeReviews	Gene locus RDR4 in contig AP008207_GR.
KEGG	osa:4327336.
Organism-specific databases
Gramene	Q5QMN4.
Phylogenomic databases
PhylomeDB	Q5QMN4.
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

RDR4_ORYSJ

Accession

Primary (citable) accession number: Q5QMN4

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 7, 2009
Last sequence update:	July 7, 2009
Last modified:	November 24, 2009
This is version 24 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)