DPOD2_ORYSJ
ID DPOD2_ORYSJ Reviewed; 429 AA.
AC Q9LRE5; Q10SB2; Q8H890; Q9SNL2;
DT 27-APR-2001, integrated into UniProtKB/Swiss-Prot.
DT 01-OCT-2000, sequence version 1.
DT 03-AUG-2022, entry version 115.
DE RecName: Full=DNA polymerase delta small subunit;
DE EC=2.7.7.7;
GN Name=POLD2; OrderedLocusNames=Os03g0128500, LOC_Os03g03650;
GN ORFNames=OJ1528D07.1, OsJ_09265 {ECO:0000312|EMBL:EEE58261.1};
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 [MRNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=12242007; DOI=10.1016/s0378-1119(02)00822-3;
RA Uchiyama Y., Hatanaka M., Kimura S., Ishibashi T., Ueda T., Sakakibara Y.,
RA Matsumoto T., Furukawa T., Hashimoto J., Sakaguchi K.;
RT "Characterization of DNA polymerase delta from a higher plant, rice (Oryza
RT sativa L.).";
RL Gene 295:19-26(2002).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16109971; DOI=10.1101/gr.3869505;
RG The rice chromosome 3 sequencing consortium;
RA Buell C.R., Yuan Q., Ouyang S., Liu J., Zhu W., Wang A., Maiti R., Haas B.,
RA Wortman J., Pertea M., Jones K.M., Kim M., Overton L., Tsitrin T.,
RA Fadrosh D., Bera J., Weaver B., Jin S., Johri S., Reardon M., Webb K.,
RA Hill J., Moffat K., Tallon L., Van Aken S., Lewis M., Utterback T.,
RA Feldblyum T., Zismann V., Iobst S., Hsiao J., de Vazeille A.R.,
RA Salzberg S.L., White O., Fraser C.M., Yu Y., Kim H., Rambo T., Currie J.,
RA Collura K., Kernodle-Thompson S., Wei F., Kudrna K., Ammiraju J.S.S.,
RA Luo M., Goicoechea J.L., Wing R.A., Henry D., Oates R., Palmer M.,
RA Pries G., Saski C., Simmons J., Soderlund C., Nelson W., de la Bastide M.,
RA Spiegel L., Nascimento L., Huang E., Preston R., Zutavern T., Palmer L.,
RA O'Shaughnessy A., Dike S., McCombie W.R., Minx P., Cordum H., Wilson R.,
RA Jin W., Lee H.R., Jiang J., Jackson S.;
RT "Sequence, annotation, and analysis of synteny between rice chromosome 3
RT and diverged grass species.";
RL Genome Res. 15:1284-1291(2005).
RN [3]
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 [4]
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 [5]
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 [6]
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 [7]
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 -!- FUNCTION: The function of the small subunit is not yet clear.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=a 2'-deoxyribonucleoside 5'-triphosphate + DNA(n) =
CC diphosphate + DNA(n+1); Xref=Rhea:RHEA:22508, Rhea:RHEA-COMP:17339,
CC Rhea:RHEA-COMP:17340, ChEBI:CHEBI:33019, ChEBI:CHEBI:61560,
CC ChEBI:CHEBI:173112; EC=2.7.7.7;
CC -!- SUBUNIT: Heterodimer with subunits of 125 kDa and 50 kDa.
CC {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}.
CC -!- SIMILARITY: Belongs to the DNA polymerase delta/II small subunit
CC family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAN17387.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=BAA85393.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AB037900; BAA99574.1; -; mRNA.
DR EMBL; AC099739; AAN17387.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AP000615; BAA85393.1; ALT_SEQ; Genomic_DNA.
DR EMBL; DP000009; ABF93778.1; -; Genomic_DNA.
DR EMBL; AP008209; BAF10755.1; -; Genomic_DNA.
DR EMBL; AP014959; BAS82105.1; -; Genomic_DNA.
DR EMBL; CM000140; EEE58261.1; -; Genomic_DNA.
DR EMBL; AK067991; BAG90699.1; -; mRNA.
DR RefSeq; XP_015629014.1; XM_015773528.1.
DR AlphaFoldDB; Q9LRE5; -.
DR SMR; Q9LRE5; -.
DR STRING; 4530.OS03T0128500-01; -.
DR PaxDb; Q9LRE5; -.
DR PRIDE; Q9LRE5; -.
DR EnsemblPlants; Os03t0128500-01; Os03t0128500-01; Os03g0128500.
DR GeneID; 4331489; -.
DR Gramene; Os03t0128500-01; Os03t0128500-01; Os03g0128500.
DR KEGG; osa:4331489; -.
DR eggNOG; KOG2732; Eukaryota.
DR HOGENOM; CLU_021763_0_0_1; -.
DR InParanoid; Q9LRE5; -.
DR OMA; DPANFML; -.
DR OrthoDB; 736068at2759; -.
DR PlantReactome; R-OSA-9675782; Maturation.
DR PlantReactome; R-OSA-9675815; Leading strand synthesis.
DR PlantReactome; R-OSA-9675885; Lagging strand synthesis.
DR Proteomes; UP000000763; Chromosome 3.
DR Proteomes; UP000007752; Chromosome 3.
DR Proteomes; UP000059680; Chromosome 3.
DR Genevisible; Q9LRE5; OS.
DR GO; GO:0043625; C:delta DNA polymerase complex; IBA:GO_Central.
DR GO; GO:0042575; C:DNA polymerase complex; IBA:GO_Central.
DR GO; GO:0003677; F:DNA binding; IEA:InterPro.
DR GO; GO:0003887; F:DNA-directed DNA polymerase activity; IEA:UniProtKB-KW.
DR GO; GO:0006271; P:DNA strand elongation involved in DNA replication; IBA:GO_Central.
DR CDD; cd07387; MPP_PolD2_C; 1.
DR InterPro; IPR007185; DNA_pol_a/d/e_bsu.
DR InterPro; IPR040663; DNA_pol_D_N.
DR InterPro; IPR024826; DNA_pol_delta/II_ssu.
DR InterPro; IPR041863; PolD2_C.
DR PANTHER; PTHR10416; PTHR10416; 1.
DR Pfam; PF18018; DNA_pol_D_N; 1.
DR Pfam; PF04042; DNA_pol_E_B; 1.
PE 2: Evidence at transcript level;
KW DNA replication; DNA-directed DNA polymerase; Nucleotidyltransferase;
KW Nucleus; Reference proteome; Transferase.
FT CHAIN 1..429
FT /note="DNA polymerase delta small subunit"
FT /id="PRO_0000096172"
SQ SEQUENCE 429 AA; 48001 MW; 10BA6ED519EB8B67 CRC64;
MERKQAEYSN LDERYAIQGE KYQGQQYSHI YFTRLHHMRN LLHALVPSWK PHLPVTTVLG
LEEGKDCIIV GTLYKHMKLK PSILDEYSKE RSAIPLVKPH NFMHPDDHLI LEDESGRVTL
AGAIPPAAYV TGVVIALHGK ETSAGNFLVE DILEAGIPPQ ITLPSINEDK YVVFVSGLSI
GSEKFNPLQF QLLIDHITGH LGDENEQSIA SNIVRVVVAG NSVHISPRFF NGQAVASKDQ
SRIAEPIKEL DIMLTQLVAS LPVDMMPGSN DPANFSLPQQ PLHRCLFAGA ATYNTFSSCS
NPHQFELDSV RFIGTSGQNI DDLYKYSDAK DKLEFVERTL RWRHLAPTAP NSLGCYPYTD
KDPFLVESCP HVYFVGNQDK YETQLLQGLE KQKVRLICIP RFCDSGVAVM LNLRNLECST
LSFSTSFDA
