ID XB3_ORYSJ Reviewed; 450 AA.
AC Q65XV2; A0A0P0WH25; Q8LLW2;
DT 13-JUL-2010, integrated into UniProtKB/Swiss-Prot.
DT 25-OCT-2004, sequence version 1.
DT 27-MAR-2024, entry version 131.
DE RecName: Full=E3 ubiquitin-protein ligase XB3;
DE EC=2.3.2.27;
DE AltName: Full=Ankyrin repeat domain and RING finger-containing protein XB3;
DE AltName: Full=RING-type E3 ubiquitin transferase XB3;
DE AltName: Full=XA21-binding protein 3;
GN Name=XB3; OrderedLocusNames=Os05g0112000, LOC_Os05g02130;
GN ORFNames=OsJ_16866, P0016H04.16;
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], FUNCTION, PHOSPHORYLATION, INTERACTION WITH
RP XA21, AND MUTAGENESIS OF CYS-323.
RC STRAIN=cv. Taipei 309;
RX PubMed=17172358; DOI=10.1105/tpc.106.046730;
RA Wang Y.S., Pi L.Y., Chen X., Chakrabarty P.K., Jiang J., De Leon A.L.,
RA Liu G.Z., Li L., Benny U., Oard J., Ronald P.C., Song W.Y.;
RT "Rice XA21 binding protein 3 is a ubiquitin ligase required for full Xa21-
RT mediated disease resistance.";
RL Plant Cell 18:3635-3646(2006).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16261349; DOI=10.1007/s00438-005-0039-y;
RA Cheng C.-H., Chung M.C., Liu S.-M., Chen S.-K., Kao F.Y., Lin S.-J.,
RA Hsiao S.-H., Tseng I.C., Hsing Y.-I.C., Wu H.-P., Chen C.-S., Shaw J.-F.,
RA Wu J., Matsumoto T., Sasaki T., Chen H.-C., Chow T.-Y.;
RT "A fine physical map of the rice chromosome 5.";
RL Mol. Genet. Genomics 274:337-345(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: E3 ubiquitin-protein ligase required for full accumulation of
CC the LRR receptor kinase XA21 and XA21-mediated disease resistance.
CC Binding to XA21 may stabilize the receptor kinase and maintain its
CC protein level. Autoubiquitinated in vitro.
CC {ECO:0000269|PubMed:17172358}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine +
CC [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-
CC cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.;
CC EC=2.3.2.27;
CC -!- PATHWAY: Protein modification; protein ubiquitination.
CC -!- SUBUNIT: Interacts (via ankyrin repeats) with XA21.
CC {ECO:0000269|PubMed:17172358}.
CC -!- PTM: Phosphorylated by XA21. {ECO:0000269|PubMed:17172358}.
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DR EMBL; AF272860; AAK58690.1; -; mRNA.
DR EMBL; AC079356; AAU44210.1; -; Genomic_DNA.
DR EMBL; AP008211; BAF16363.1; -; Genomic_DNA.
DR EMBL; AP014961; BAS91932.1; -; Genomic_DNA.
DR EMBL; CM000142; EEE62082.1; -; Genomic_DNA.
DR EMBL; AK107650; BAG98113.1; -; mRNA.
DR RefSeq; XP_015640114.1; XM_015784628.1.
DR AlphaFoldDB; Q65XV2; -.
DR SMR; Q65XV2; -.
DR STRING; 39947.Q65XV2; -.
DR PaxDb; 39947-Q65XV2; -.
DR EnsemblPlants; Os05t0112000-01; Os05t0112000-01; Os05g0112000.
DR GeneID; 4337598; -.
DR Gramene; Os05t0112000-01; Os05t0112000-01; Os05g0112000.
DR KEGG; osa:4337598; -.
DR eggNOG; KOG4177; Eukaryota.
DR InParanoid; Q65XV2; -.
DR OMA; AYYGHFE; -.
DR OrthoDB; 6251at2759; -.
DR UniPathway; UPA00143; -.
DR Proteomes; UP000000763; Chromosome 5.
DR Proteomes; UP000007752; Chromosome 5.
DR Proteomes; UP000059680; Chromosome 5.
DR ExpressionAtlas; Q65XV2; baseline and differential.
DR Genevisible; Q65XV2; OS.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0004842; F:ubiquitin-protein transferase activity; IDA:UniProtKB.
DR GO; GO:0042742; P:defense response to bacterium; IMP:UniProtKB.
DR GO; GO:0051865; P:protein autoubiquitination; IDA:UniProtKB.
DR Gene3D; 1.25.40.20; Ankyrin repeat-containing domain; 3.
DR Gene3D; 3.30.40.10; Zinc/RING finger domain, C3HC4 (zinc finger); 1.
DR InterPro; IPR002110; Ankyrin_rpt.
DR InterPro; IPR036770; Ankyrin_rpt-contain_sf.
DR InterPro; IPR001841; Znf_RING.
DR InterPro; IPR013083; Znf_RING/FYVE/PHD.
DR PANTHER; PTHR24173; ANKYRIN REPEAT CONTAINING; 1.
DR PANTHER; PTHR24173:SF74; UVEAL AUTOANTIGEN WITH COILED-COIL DOMAINS AND ANKYRIN REPEATS; 1.
DR Pfam; PF00023; Ank; 1.
DR Pfam; PF12796; Ank_2; 2.
DR SMART; SM00248; ANK; 6.
DR SUPFAM; SSF48403; Ankyrin repeat; 1.
DR SUPFAM; SSF57850; RING/U-box; 1.
DR PROSITE; PS50297; ANK_REP_REGION; 1.
DR PROSITE; PS50088; ANK_REPEAT; 4.
DR PROSITE; PS50089; ZF_RING_2; 1.
PE 1: Evidence at protein level;
KW ANK repeat; Metal-binding; Plant defense; Reference proteome; Repeat;
KW Transferase; Ubl conjugation pathway; Zinc; Zinc-finger.
FT CHAIN 1..450
FT /note="E3 ubiquitin-protein ligase XB3"
FT /id="PRO_0000395744"
FT REPEAT 11..40
FT /note="ANK 1"
FT REPEAT 46..75
FT /note="ANK 2"
FT REPEAT 79..108
FT /note="ANK 3"
FT REPEAT 113..142
FT /note="ANK 4"
FT REPEAT 158..187
FT /note="ANK 5"
FT REPEAT 195..225
FT /note="ANK 6"
FT ZN_FING 323..372
FT /note="RING-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00175"
FT REGION 291..312
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 385..450
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MUTAGEN 323
FT /note="C->A: Loss of autoubiquitination."
FT /evidence="ECO:0000269|PubMed:17172358"
SQ SEQUENCE 450 AA; 48203 MW; D6CCBFAA1E1A0584 CRC64;
MGHGVSCART GDEHDFFRAA QLGDLDALAA LLAADPSLAR RATLYDRLSV LHIAAANGRI
EVLSMFLDRG APPDAVNRHK QTPLMLAAMH GKIDCVLKLL QADANILMFD SVHARTCLHH
AAYYGHVDCL QAILAAAQTT PVADSWGFAR FVNVRDDHGA TPLHLAARQG RPGCVQVLLE
NGAIVSALTG SYGFPGSTSL HLAARSGNLD CIRKLLAWGA DRLQRDSAGR IPYSVALKRN
HGACAALLNP TSAEPMVWPS PLKFISELEP EAKALLEAAL MEANREREKK ILNGTKYSLP
SPSPGDDSAD DDACSEVSDT ELCCICFDQA CTIEVQDCGH QMCAPCTLAL CCHNKPNPTT
LTPPSPACPF CRGSISRLVV AQTRSACDPD KPSSLQLTRK RSRRSHNLSE GSSSFKGLPS
AMGSFSKLGR GSSRMADSDS SNLDKPEHDL
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