ID   PUB04_ORYSJ             Reviewed;         728 AA.
AC   Q6EUK7; B7E7M7; Q0E2J5;
DT   05-OCT-2010, integrated into UniProtKB/Swiss-Prot.
DT   16-AUG-2004, sequence version 1.
DT   03-AUG-2022, entry version 102.
DE   RecName: Full=U-box domain-containing protein 4;
DE            EC=2.3.2.27;
DE   AltName: Full=Plant U-box protein 4;
DE            Short=OsPUB4;
DE   AltName: Full=RING-type E3 ubiquitin transferase PUB4 {ECO:0000305};
GN   Name=PUB4; OrderedLocusNames=Os02g0234300, LOC_Os02g13960;
GN   ORFNames=OJ1145_E05.4, OsJ_06003;
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=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   [2]
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   [3]
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   [4]
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   [5]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 148-728.
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   FUNCTION, GENE FAMILY, AND NOMENCLATURE.
RX   PubMed=19825583; DOI=10.1093/mp/ssn044;
RA   Zeng L.R., Park C.H., Venu R.C., Gough J., Wang G.L.;
RT   "Classification, expression pattern, and E3 ligase activity assay of rice
RT   U-box-containing proteins.";
RL   Mol. Plant 1:800-815(2008).
CC   -!- FUNCTION: Possesses E3 ubiquitin-protein ligase in vitro.
CC       {ECO:0000269|PubMed:19825583}.
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   -!- SEQUENCE CAUTION:
CC       Sequence=BAF08293.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};
CC       Sequence=BAG88374.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};
CC       Sequence=EEE56620.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};
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DR   EMBL; AP004030; BAD27662.1; -; Genomic_DNA.
DR   EMBL; AP008208; BAF08293.1; ALT_INIT; Genomic_DNA.
DR   EMBL; AP014958; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR   EMBL; CM000139; EEE56620.1; ALT_INIT; Genomic_DNA.
DR   EMBL; AK062592; BAG88374.1; ALT_INIT; mRNA.
DR   RefSeq; XP_015625965.1; XM_015770479.1.
DR   AlphaFoldDB; Q6EUK7; -.
DR   SMR; Q6EUK7; -.
DR   STRING; 4530.OS02T0234300-01; -.
DR   PaxDb; Q6EUK7; -.
DR   PRIDE; Q6EUK7; -.
DR   GeneID; 4328818; -.
DR   KEGG; osa:4328818; -.
DR   eggNOG; KOG0167; Eukaryota.
DR   HOGENOM; CLU_006348_5_2_1; -.
DR   InParanoid; Q6EUK7; -.
DR   OrthoDB; 528081at2759; -.
DR   UniPathway; UPA00143; -.
DR   Proteomes; UP000000763; Chromosome 2.
DR   Proteomes; UP000007752; Chromosome 2.
DR   Proteomes; UP000059680; Chromosome 2.
DR   Genevisible; Q6EUK7; OS.
DR   GO; GO:0005737; C:cytoplasm; IBA:GO_Central.
DR   GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR   GO; GO:0004842; F:ubiquitin-protein transferase activity; IDA:UniProtKB.
DR   GO; GO:0016567; P:protein ubiquitination; IDA:UniProtKB.
DR   CDD; cd16664; RING-Ubox_PUB; 1.
DR   Gene3D; 1.25.10.10; -; 1.
DR   Gene3D; 3.30.40.10; -; 1.
DR   InterPro; IPR011989; ARM-like.
DR   InterPro; IPR016024; ARM-type_fold.
DR   InterPro; IPR000225; Armadillo.
DR   InterPro; IPR045210; RING-Ubox_PUB.
DR   InterPro; IPR003613; Ubox_domain.
DR   InterPro; IPR013083; Znf_RING/FYVE/PHD.
DR   Pfam; PF00514; Arm; 1.
DR   Pfam; PF04564; U-box; 1.
DR   SMART; SM00185; ARM; 5.
DR   SMART; SM00504; Ubox; 1.
DR   SUPFAM; SSF48371; SSF48371; 1.
DR   PROSITE; PS50176; ARM_REPEAT; 1.
DR   PROSITE; PS51698; U_BOX; 1.
PE   2: Evidence at transcript level;
KW   Reference proteome; Repeat; Transferase; Ubl conjugation pathway.
FT   CHAIN           1..728
FT                   /note="U-box domain-containing protein 4"
FT                   /id="PRO_0000397689"
FT   DOMAIN          296..370
FT                   /note="U-box"
FT   REPEAT          441..483
FT                   /note="ARM 1"
FT   REPEAT          526..568
FT                   /note="ARM 2"
SQ   SEQUENCE   728 AA;  78162 MW;  1B57698E38D1D5E6 CRC64;
     MAAAASASSP VEFLLRRPAP RRRRLPLAGA FFAPTGLAGA TLLRAVASLA ASLVAGARPP
     SQRRNVDALA RRLALLSAIL ESILLDTAAA GAFSDAANLC FRELYVVLFR AELLVSYVAS
     AGRAWALLRS PHLAASFRDL DAELAVVLDV LPAASLRLSH DATGLLDLLR AHCRCRAPAQ
     YHDPDEAALR ERLMDALRQF DLGQPPDHPS LQSLLADMGI STAASCRAEI DYLEEQILSQ
     EEDTDLPLVG SVLALLRYCL FAVFDPSNAK ALRDWPLSGN RQRLLSIGGG DDTSFSVPKE
     FSCPISLDLM RDPVVASTGQ TYDRPSIIQW IEEGHSTCPN SGQTLADHRL VPNRALRSLI
     SQWCGVYGLQ YDSPESNEGM AECVAASCSS RAAMEANKAT ARILVRMLED GSENVKAVAA
     KEIRLLAKTG KQNRAFIADL GAIPLLCRLL LSNDWMAQEN AVTALLNLSI FEPNKGRIME
     QEGCLRLIVG VLQNGWTTEA KENAAATLFS LSVVHNFKKL IMNEPGAVEE LASMLTKGTS
     RGKKDAVMAL FNLSTHPESS ARMLESCAVV ALIQSLRNDT VSEEAAGALA LLMKQPSIVH
     LVGSSETVIT SLVGLMRRGT PKGKENAVSA LYEICRRGGS ALVQRVAKIP GLNTVIQTIT
     LNGTKRAKKK ASLIVKMCQR SQMPSAMALG STLTVVDRSL VGNNTLRRAA SFGSGELSNP
     ISISVQVP