GenomeNet

Database: UniProt
Entry: Q5N870
LinkDB: Q5N870
Original site: Q5N870 
ID   DCL3A_ORYSJ             Reviewed;        1651 AA.
AC   Q5N870; A0A0P0VC26;
DT   07-JUL-2009, integrated into UniProtKB/Swiss-Prot.
DT   01-FEB-2005, sequence version 1.
DT   16-OCT-2019, entry version 116.
DE   RecName: Full=Endoribonuclease Dicer homolog 3a;
DE   AltName: Full=Dicer-like protein 3a;
DE            Short=OsDCL3a;
DE            EC=3.1.26.-;
GN   Name=DCL3A; OrderedLocusNames=Os01g0909200, LOC_Os01g68120;
GN   ORFNames=P0456E05.21;
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=12447438; DOI=10.1038/nature01184;
RA   Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y.,
RA   Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H.,
RA   Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M.,
RA   Okamoto M., Ando T., Aoki H., Arita K., Hamada M., Harada C.,
RA   Hijishita S., Honda M., Ichikawa Y., Idonuma A., Iijima M., Ikeda M.,
RA   Ikeno M., Ito S., Ito T., Ito Y., Ito Y., Iwabuchi A., Kamiya K.,
RA   Karasawa W., Katagiri S., Kikuta A., Kobayashi N., Kono I.,
RA   Machita K., Maehara T., Mizuno H., Mizubayashi T., Mukai Y.,
RA   Nagasaki H., Nakashima M., Nakama Y., Nakamichi Y., Nakamura M.,
RA   Namiki N., Negishi M., Ohta I., Ono N., Saji S., Sakai K., Shibata M.,
RA   Shimokawa T., Shomura A., Song J., Takazaki Y., Terasawa K., Tsuji K.,
RA   Waki K., Yamagata H., Yamane H., Yoshiki S., Yoshihara R., Yukawa K.,
RA   Zhong H., Iwama H., Endo T., Ito H., Hahn J.H., Kim H.-I., Eun M.-Y.,
RA   Yano M., Jiang J., Gojobori T.;
RT   "The genome sequence and structure of rice chromosome 1.";
RL   Nature 420:312-316(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.,
RA   McCombie W.R., Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S.,
RA   Childs K.L., Davidson R.M., Lin H., Quesada-Ocampo L.,
RA   Vaillancourt B., Sakai H., Lee S.S., Kim J., Numa H., Itoh T.,
RA   Buell C.R., Matsumoto T.;
RT   "Improvement of the Oryza sativa Nipponbare reference genome using
RT   next generation sequence and optical map data.";
RL   Rice 6:4-4(2013).
RN   [5]
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).
RN   [6]
RP   TISSUE SPECIFICITY, 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
RT   and their expression analysis during reproductive development and
RT   stress in rice.";
RL   BMC Genomics 9:451-451(2008).
CC   -!- FUNCTION: Probably involved in the RNA silencing pathway. May
CC       cleave double-stranded RNA to produce short 21-24 nucleotides (nt)
CC       RNAs which target the selective destruction of complementary RNAs
CC       (By similarity). {ECO:0000250}.
CC   -!- COFACTOR:
CC       Name=Mg(2+); Xref=ChEBI:CHEBI:18420; Evidence={ECO:0000250};
CC       Name=Mn(2+); Xref=ChEBI:CHEBI:29035; Evidence={ECO:0000250};
CC   -!- SUBUNIT: May interact with ARGONAUTE1 or PINHEAD through their
CC       common PAZ domains. {ECO:0000250}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000305}.
CC   -!- TISSUE SPECIFICITY: Expressed in roots, shoot apical meristem
CC       (SAM), leaves, panicles and seeds. {ECO:0000269|PubMed:18826656}.
CC   -!- SIMILARITY: Belongs to the helicase family. Dicer subfamily.
CC       {ECO:0000255|PROSITE-ProRule:PRU00657}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=AK120075; Type=Frameshift; Evidence={ECO:0000305};
DR   EMBL; AP003416; BAD82327.1; -; Genomic_DNA.
DR   EMBL; AP008207; BAF07062.1; -; Genomic_DNA.
DR   EMBL; AP014957; BAS75821.1; -; Genomic_DNA.
DR   EMBL; AK120075; -; NOT_ANNOTATED_CDS; mRNA.
DR   RefSeq; XP_015621462.1; XM_015765976.1.
DR   STRING; 4530.OS01T0909200-01; -.
DR   PRIDE; Q5N870; -.
DR   EnsemblPlants; Os01t0909200-01; Os01t0909200-01; Os01g0909200.
DR   GeneID; 4324864; -.
DR   Gramene; Os01t0909200-01; Os01t0909200-01; Os01g0909200.
DR   KEGG; osa:4324864; -.
DR   HOGENOM; HOG000030250; -.
DR   InParanoid; Q5N870; -.
DR   KO; K11592; -.
DR   OMA; FNMYVQT; -.
DR   OrthoDB; 1337630at2759; -.
DR   Proteomes; UP000059680; Chromosome 1.
DR   Genevisible; Q5N870; OS.
DR   GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR   GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
DR   GO; GO:0003677; F:DNA binding; IEA:InterPro.
DR   GO; GO:0004386; F:helicase activity; IEA:UniProtKB-KW.
DR   GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR   GO; GO:0004525; F:ribonuclease III activity; IEA:InterPro.
DR   GO; GO:0003723; F:RNA binding; IEA:UniProtKB-KW.
DR   GO; GO:0031047; P:gene silencing by RNA; IEA:UniProtKB-KW.
DR   GO; GO:0006396; P:RNA processing; IEA:InterPro.
DR   CDD; cd00593; RIBOc; 2.
DR   Gene3D; 1.10.1520.10; -; 1.
DR   Gene3D; 3.30.160.380; -; 1.
DR   InterPro; IPR038248; Dicer_dimer_sf.
DR   InterPro; IPR005034; Dicer_dimerisation_dom.
DR   InterPro; IPR006935; Helicase/UvrB_N.
DR   InterPro; IPR014001; Helicase_ATP-bd.
DR   InterPro; IPR001650; Helicase_C.
DR   InterPro; IPR027417; P-loop_NTPase.
DR   InterPro; IPR003100; PAZ_dom.
DR   InterPro; IPR036085; PAZ_dom_sf.
DR   InterPro; IPR000999; RNase_III_dom.
DR   InterPro; IPR036389; RNase_III_sf.
DR   Pfam; PF03368; Dicer_dimer; 1.
DR   Pfam; PF00271; Helicase_C; 1.
DR   Pfam; PF02170; PAZ; 1.
DR   Pfam; PF04851; ResIII; 1.
DR   Pfam; PF00636; Ribonuclease_3; 2.
DR   SMART; SM00487; DEXDc; 1.
DR   SMART; SM00490; HELICc; 1.
DR   SMART; SM00949; PAZ; 1.
DR   SMART; SM00535; RIBOc; 2.
DR   SUPFAM; SSF101690; SSF101690; 1.
DR   SUPFAM; SSF52540; SSF52540; 1.
DR   SUPFAM; SSF69065; SSF69065; 2.
DR   PROSITE; PS51327; DICER_DSRBF; 1.
DR   PROSITE; PS51192; HELICASE_ATP_BIND_1; 1.
DR   PROSITE; PS51194; HELICASE_CTER; 1.
DR   PROSITE; PS50821; PAZ; 1.
DR   PROSITE; PS00517; RNASE_3_1; 1.
DR   PROSITE; PS50142; RNASE_3_2; 2.
PE   2: Evidence at transcript level;
KW   ATP-binding; Complete proteome; Endonuclease; Helicase; Hydrolase;
KW   Magnesium; Manganese; Metal-binding; Nuclease; Nucleotide-binding;
KW   Nucleus; Reference proteome; Repeat; RNA-binding;
KW   RNA-mediated gene silencing.
FT   CHAIN         1   1651       Endoribonuclease Dicer homolog 3a.
FT                                /FTId=PRO_0000378419.
FT   DOMAIN       39    214       Helicase ATP-binding.
FT                                {ECO:0000255|PROSITE-ProRule:PRU00541}.
FT   DOMAIN      402    563       Helicase C-terminal.
FT                                {ECO:0000255|PROSITE-ProRule:PRU00542}.
FT   DOMAIN      587    677       Dicer dsRNA-binding fold.
FT                                {ECO:0000255|PROSITE-ProRule:PRU00657}.
FT   DOMAIN      864    979       PAZ. {ECO:0000255|PROSITE-
FT                                ProRule:PRU00142}.
FT   DOMAIN     1031   1200       RNase III 1. {ECO:0000255|PROSITE-
FT                                ProRule:PRU00177}.
FT   DOMAIN     1241   1389       RNase III 2. {ECO:0000255|PROSITE-
FT                                ProRule:PRU00177}.
FT   DOMAIN     1413   1481       DRBM.
FT   NP_BIND      52     59       ATP. {ECO:0000255|PROSITE-
FT                                ProRule:PRU00541}.
FT   MOTIF       161    164       DECH box. {ECO:0000250}.
FT   METAL      1280   1280       Magnesium or manganese. {ECO:0000250}.
FT   METAL      1375   1375       Magnesium or manganese. {ECO:0000250}.
FT   METAL      1378   1378       Magnesium or manganese. {ECO:0000250}.
FT   SITE       1371   1371       Important for activity. {ECO:0000250}.
SQ   SEQUENCE   1651 AA;  184892 MW;  DDDCEB12386F4818 CRC64;
     MNPLKRSLES SSQEHEAGKQ KLQKRECQDF TPRRYQLDVY EVAMRRNTIA MLDTGAGKTM
     IAVMLIKEFG KINRTKNAGK VIIFLAPTVQ LVTQQCEVIE IHTDFEVEQY YGAKGVDQWT
     GPRWQEQISK YQVMVMTPQV FLQALRNAFL ILDMVSLMIF DECHHATGNH PYTRIMKEFY
     HKSEHKPSVF GMTASPVIRK GISSHLDCEG QFCELENLLD AKIYTVSDRE EIEFCVPSAK
     EMCRYYDSKP VCFEDLSEEL GVLCSKYDAL ITELQNKRSD MYKDADDITK ESKRRLSKSI
     AKICYCLDDV GLICASEATK ICIERGQEKG WLKEVVDATD QQTDANGSRL FAENSALHMK
     FFEEALHLID KRLQQGIDML LNSESGCVEA AKTGYISPKL YELIQIFHSF SNSRHARCLI
     FVDRKITARV IDRMIKKIGH LAHFTVSFLT GGRSSVDALT PKMQKDTLDS FRSGKVNLLF
     TTDVAEEGIH VPECSCVIRF DLPRTTRSYV QSRGRARQED SQYILMIERG NVKQNDLISA
     IVRSETSMVK IASSRESGNL SPGFVPNEEI NEYHVGTTGA KVTADSSISI VYRYCEKLPQ
     DKCYSPKPTF EFTHHDDGYV CTLALPPSAV LQILVGPKAR NMHKAKQLVC LDACKKLHEL
     GALDDHLCLS VEDPVPEIVS KNKGTGIGTT KRKELHGTTR IHAWSGNWVS KKTALKLQSY
     KMNFVCDQAG QIYSEFVLLI DATLPDEVAT LEIDLYLHDK MVKTSVSSCG LLELDAQQME
     QAKLFQGLLF NGLFGKLFTR SKVPNAPREF ILNKEDTFVW NTASVYLLLP TNPSFDSNVC
     INWSVIDAAA TAVKLMRRIY SENKRELLGI FDSDQNVGDL IHLANKSCKA NSLKDMVVLA
     VHTGKIYTAL DITELSGDSA FDGASDKKEC KFRTFAEYFK KKYGIVLRHP SQPLLVLKPS
     HNPHNLLSSK FRDEGNVVEN MSNGTPVVNK TSNRVHMPPE LLIPLDLPVE ILRSFYLFPA
     LMYRIESLTL ASQLRSEIGY SDSNISSFLI LEAITTLRCS EDFSMERLEL LGDSVLKYAV
     SCHLFLKFPN KDEGQLSSIR CHMICNATLY KLGIERNVQG YVRDAAFDPR RWLAPGQLSI
     RPSPCECPVK SEVVTDDIHI IDDKAIVLGK ACDKGHRWMC SKTIADCVEA IIGAYYAGGG
     LRAAMAVLKW LGIGAEIEED LIVQAILSAS VQTYLPKDNV FEMLEAKLGY SFSVKGLLVE
     ALTHPSQQEL GAKYCYERLE FLGDAVLDIL LTRYLFNSHK DTNEGELTDL RSASVNNENF
     AQVAVKHNFH HFLQHSSGLL LDQITEYVNR LEGSSMDKVE LLSDGLPKGP KVLGDIVESI
     AGAILLDTKL DLDVVWGIFE PLLSPIVTPE NLELPPYREL IEWCGKHGYF VGINCRDQGD
     TVVATLDVQL KEVLLVRQGF SKKRKDAKAH ASSLLLKDLE EKGLIIPKNA SKTEQFEKHC
     GSTNPFNNLH VDAMDTQTPK PTKEKNAADS RNISDPLLGK PLHVIVKTSK GGPRIALYEL
     CKKLQWPMPT MESEKVQPSF SSVCSSPGGS SQKATPQAFA FASTITLHIP NADVISLTGD
     GRADKKSSQD SAALFLLYEL QRRGTLQLQE V
//
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