PUB28_ARATH
ID PUB28_ARATH Reviewed; 409 AA.
AC Q9LXE3;
DT 26-FEB-2008, integrated into UniProtKB/Swiss-Prot.
DT 01-OCT-2000, sequence version 1.
DT 25-MAY-2022, entry version 137.
DE RecName: Full=U-box domain-containing protein 28;
DE EC=2.3.2.27;
DE AltName: Full=Plant U-box protein 28;
DE AltName: Full=RING-type E3 ubiquitin transferase PUB28 {ECO:0000305};
GN Name=PUB28; OrderedLocusNames=At5g09800; ORFNames=F17I14_10, MTH16.27;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10470850; DOI=10.1093/dnares/6.3.183;
RA Kaneko T., Katoh T., Sato S., Nakamura Y., Asamizu E., Kotani H.,
RA Miyajima N., Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 5. IX. Sequence
RT features of the regions of 1,011,550 bp covered by seventeen P1 and TAC
RT clones.";
RL DNA Res. 6:183-195(1999).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=11130714; DOI=10.1038/35048507;
RA Tabata S., Kaneko T., Nakamura Y., Kotani H., Kato T., Asamizu E.,
RA Miyajima N., Sasamoto S., Kimura T., Hosouchi T., Kawashima K., Kohara M.,
RA Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Naruo K.,
RA Okumura S., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M.,
RA Yasuda M., Sato S., de la Bastide M., Huang E., Spiegel L., Gnoj L.,
RA O'Shaughnessy A., Preston R., Habermann K., Murray J., Johnson D.,
RA Rohlfing T., Nelson J., Stoneking T., Pepin K., Spieth J., Sekhon M.,
RA Armstrong J., Becker M., Belter E., Cordum H., Cordes M., Courtney L.,
RA Courtney W., Dante M., Du H., Edwards J., Fryman J., Haakensen B.,
RA Lamar E., Latreille P., Leonard S., Meyer R., Mulvaney E., Ozersky P.,
RA Riley A., Strowmatt C., Wagner-McPherson C., Wollam A., Yoakum M., Bell M.,
RA Dedhia N., Parnell L., Shah R., Rodriguez M., Hoon See L., Vil D.,
RA Baker J., Kirchoff K., Toth K., King L., Bahret A., Miller B., Marra M.A.,
RA Martienssen R., McCombie W.R., Wilson R.K., Murphy G., Bancroft I.,
RA Volckaert G., Wambutt R., Duesterhoeft A., Stiekema W., Pohl T.,
RA Entian K.-D., Terryn N., Hartley N., Bent E., Johnson S., Langham S.-A.,
RA McCullagh B., Robben J., Grymonprez B., Zimmermann W., Ramsperger U.,
RA Wedler H., Balke K., Wedler E., Peters S., van Staveren M., Dirkse W.,
RA Mooijman P., Klein Lankhorst R., Weitzenegger T., Bothe G., Rose M.,
RA Hauf J., Berneiser S., Hempel S., Feldpausch M., Lamberth S.,
RA Villarroel R., Gielen J., Ardiles W., Bents O., Lemcke K., Kolesov G.,
RA Mayer K.F.X., Rudd S., Schoof H., Schueller C., Zaccaria P., Mewes H.-W.,
RA Bevan M., Fransz P.F.;
RT "Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana.";
RL Nature 408:823-826(2000).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RA Kim C.J., Chen H., Cheuk R.F., Shinn P., Carninci P., Hayashizaki Y.,
RA Ishida J., Kamiya A., Kawai J., Narusaka M., Sakurai T., Satou M., Seki M.,
RA Shinozaki K., Ecker J.R.;
RT "Arabidopsis ORF clones.";
RL Submitted (DEC-2003) to the EMBL/GenBank/DDBJ databases.
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RA Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A.,
RA Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y.,
RA Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.,
RA Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y.,
RA Shinozaki K.;
RT "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs.";
RL Submitted (SEP-2004) to the EMBL/GenBank/DDBJ databases.
RN [6]
RP GENE FAMILY ORGANIZATION, AND NOMENCLATURE.
RX PubMed=11495788; DOI=10.1016/s1360-1385(01)01960-4;
RA Azevedo C., Santos-Rosa M.J., Shirasu K.;
RT "The U-box protein family in plants.";
RL Trends Plant Sci. 6:354-358(2001).
RN [7]
RP GENE FAMILY ORGANIZATION.
RX PubMed=14657406; DOI=10.1104/pp.103.029553;
RA Mudgil Y., Shiu S.-H., Stone S.L., Salt J.N., Goring D.R.;
RT "A large complement of the predicted Arabidopsis ARM repeat proteins are
RT members of the U-box E3 ubiquitin ligase family.";
RL Plant Physiol. 134:59-66(2004).
CC -!- FUNCTION: Functions as an E3 ubiquitin ligase. {ECO:0000250}.
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 -!- INTERACTION:
CC Q9LXE3; Q8L5Z0: At4g33940; NbExp=3; IntAct=EBI-4432709, EBI-4432704;
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DR EMBL; AB020752; BAB09538.1; -; Genomic_DNA.
DR EMBL; AL353994; CAB89350.1; -; Genomic_DNA.
DR EMBL; CP002688; AED91448.1; -; Genomic_DNA.
DR EMBL; BT010883; AAR24661.1; -; mRNA.
DR EMBL; AK175195; BAD42958.1; -; mRNA.
DR EMBL; AK176549; BAD44312.1; -; mRNA.
DR PIR; T49918; T49918.
DR RefSeq; NP_196542.1; NM_121017.3.
DR AlphaFoldDB; Q9LXE3; -.
DR SMR; Q9LXE3; -.
DR BioGRID; 16118; 2.
DR IntAct; Q9LXE3; 2.
DR STRING; 3702.AT5G09800.1; -.
DR PaxDb; Q9LXE3; -.
DR PRIDE; Q9LXE3; -.
DR EnsemblPlants; AT5G09800.1; AT5G09800.1; AT5G09800.
DR GeneID; 830840; -.
DR Gramene; AT5G09800.1; AT5G09800.1; AT5G09800.
DR KEGG; ath:AT5G09800; -.
DR Araport; AT5G09800; -.
DR TAIR; locus:2144846; AT5G09800.
DR eggNOG; ENOG502QTKN; Eukaryota.
DR HOGENOM; CLU_006348_1_1_1; -.
DR InParanoid; Q9LXE3; -.
DR OMA; CSAVLEF; -.
DR OrthoDB; 989243at2759; -.
DR PhylomeDB; Q9LXE3; -.
DR UniPathway; UPA00143; -.
DR PRO; PR:Q9LXE3; -.
DR Proteomes; UP000006548; Chromosome 5.
DR ExpressionAtlas; Q9LXE3; baseline and differential.
DR Genevisible; Q9LXE3; AT.
DR GO; GO:0061630; F:ubiquitin protein ligase activity; IEA:InterPro.
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; IPR045185; PUB22/23/24-like.
DR InterPro; IPR045210; RING-Ubox_PUB.
DR InterPro; IPR003613; Ubox_domain.
DR InterPro; IPR013083; Znf_RING/FYVE/PHD.
DR PANTHER; PTHR22849; PTHR22849; 1.
DR Pfam; PF04564; U-box; 1.
DR SMART; SM00504; Ubox; 1.
DR SUPFAM; SSF48371; SSF48371; 1.
DR PROSITE; PS51698; U_BOX; 1.
PE 1: Evidence at protein level;
KW Reference proteome; Repeat; Transferase; Ubl conjugation pathway.
FT CHAIN 1..409
FT /note="U-box domain-containing protein 28"
FT /id="PRO_0000322172"
FT DOMAIN 10..84
FT /note="U-box"
FT REPEAT 178..218
FT /note="ARM 1"
FT REPEAT 219..261
FT /note="ARM 2"
FT REPEAT 263..304
FT /note="ARM 3"
SQ SEQUENCE 409 AA; 45775 MW; F262601F7DB0276B CRC64;
MRSDDLYITT VPCFFKCPIS LDVMKSPVSL STGVTYDRVS IQRWLDDGNN TCPATMQILQ
NKEFVPNLTL HRLIDHWSDS INRRADSESP ESDTPTRDEI NAAIERFRIE NDARSKILRF
ARESDENREF LAGKDDFVAM LVDLISDSRN FSDSQLLLVG EAVKILSMIR RKIFDRRRLS
NLILTNGGDC LTSFFLLIKR GNPKLKIDCS AVLEFIAVDA ESKLIIAKGE GLVTEIIKLI
SSDSDSSLIE ANLSLLIAIA SSKRVKLALI REKLVTKLTS LLTDPTTSVS VTEKCLKLLE
AISSCKEGRS EICDGVCVET VVNKLMKVST AATEHAVTVL WSVCYLFKEK KAQDAVIRIN
GVTKILLLLQ SNCSLTVRHM LTDLLKVFKV NSRSCLSVYE TKTTHIMPF
