ID   PUB41_ARATH             Reviewed;         559 AA.
AC   Q0WUF6; Q8L7M5; Q9FJJ0;
DT   26-FEB-2008, integrated into UniProtKB/Swiss-Prot.
DT   05-SEP-2006, sequence version 1.
DT   03-AUG-2022, entry version 103.
DE   RecName: Full=U-box domain-containing protein 41;
DE            EC=2.3.2.27;
DE   AltName: Full=Plant U-box protein 41;
DE   AltName: Full=RING-type E3 ubiquitin transferase PUB41 {ECO:0000305};
GN   Name=PUB41; OrderedLocusNames=At5g62560; ORFNames=K19B1.17;
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=9872454; DOI=10.1093/dnares/5.5.297;
RA   Nakamura Y., Sato S., Asamizu E., Kaneko T., Kotani H., Miyajima N.,
RA   Tabata S.;
RT   "Structural analysis of Arabidopsis thaliana chromosome 5. VII. Sequence
RT   features of the regions of 1,013,767 bp covered by sixteen physically
RT   assigned P1 and TAC clones.";
RL   DNA Res. 5:297-308(1998).
RN   [2]
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   [3]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   STRAIN=cv. Columbia;
RX   PubMed=14593172; DOI=10.1126/science.1088305;
RA   Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M.,
RA   Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G.,
RA   Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L.,
RA   Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C.,
RA   Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J.,
RA   Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A.,
RA   Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C.,
RA   Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X.,
RA   Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M.,
RA   Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K.,
RA   Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A.,
RA   Ecker J.R.;
RT   "Empirical analysis of transcriptional activity in the Arabidopsis
RT   genome.";
RL   Science 302:842-846(2003).
RN   [4]
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 (JUL-2006) to the EMBL/GenBank/DDBJ databases.
RN   [5]
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   -!- SEQUENCE CAUTION:
CC       Sequence=BAB11506.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR   EMBL; AB015469; BAB11506.1; ALT_SEQ; Genomic_DNA.
DR   EMBL; CP002688; AED97622.1; -; Genomic_DNA.
DR   EMBL; AY128369; AAM91572.1; -; mRNA.
DR   EMBL; BT000351; AAN15670.1; -; mRNA.
DR   EMBL; AK227203; BAE99242.1; -; mRNA.
DR   RefSeq; NP_201062.1; NM_125650.4.
DR   AlphaFoldDB; Q0WUF6; -.
DR   SMR; Q0WUF6; -.
DR   BioGRID; 21620; 1.
DR   STRING; 3702.AT5G62560.1; -.
DR   iPTMnet; Q0WUF6; -.
DR   PaxDb; Q0WUF6; -.
DR   PRIDE; Q0WUF6; -.
DR   ProteomicsDB; 226109; -.
DR   EnsemblPlants; AT5G62560.1; AT5G62560.1; AT5G62560.
DR   GeneID; 836376; -.
DR   Gramene; AT5G62560.1; AT5G62560.1; AT5G62560.
DR   KEGG; ath:AT5G62560; -.
DR   Araport; AT5G62560; -.
DR   TAIR; locus:2154124; AT5G62560.
DR   eggNOG; ENOG502QPJU; Eukaryota.
DR   HOGENOM; CLU_006348_7_0_1; -.
DR   InParanoid; Q0WUF6; -.
DR   OMA; HAAGAMY; -.
DR   OrthoDB; 425663at2759; -.
DR   PhylomeDB; Q0WUF6; -.
DR   UniPathway; UPA00143; -.
DR   PRO; PR:Q0WUF6; -.
DR   Proteomes; UP000006548; Chromosome 5.
DR   ExpressionAtlas; Q0WUF6; baseline and differential.
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; IEA:InterPro.
DR   Gene3D; 1.25.10.10; -; 2.
DR   Gene3D; 3.30.40.10; -; 1.
DR   InterPro; IPR011989; ARM-like.
DR   InterPro; IPR016024; ARM-type_fold.
DR   InterPro; IPR000225; Armadillo.
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; 4.
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..559
FT                   /note="U-box domain-containing protein 41"
FT                   /id="PRO_0000322181"
FT   DOMAIN          30..104
FT                   /note="U-box"
FT   REPEAT          266..305
FT                   /note="ARM 1"
FT   REPEAT          307..346
FT                   /note="ARM 2"
FT   REPEAT          348..388
FT                   /note="ARM 3"
FT   REPEAT          390..427
FT                   /note="ARM 4"
FT   REPEAT          428..472
FT                   /note="ARM 5"
FT   REGION          1..30
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          121..156
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        8..26
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   CONFLICT        4..5
FT                   /note="NK -> KR (in Ref. 3; AAM91572/AAN15670)"
FT                   /evidence="ECO:0000305"
SQ   SEQUENCE   559 AA;  60464 MW;  2AEE078A658081E0 CRC64;
     MGGNKQRWFS FHQRSSSATT TTLPQHKHDE TPPEFLCPIT GFLMSDPVVV SSGQTFERLS
     VQVCRNLGYI PDLLDGTRPD LSTVIPNLAM KSTIFSWCDR QKVDHPRPPD AAYVEGVVRA
     RMDKDPNPSP GQSPGPGDKD PEPEILPPVE ENSPSDYDAV MEAIRARSKN SMSPTTSLES
     VTIGQSSYHP VRAVSMFSSS TTSSSSGVFA GADSPFRNAM SFSSTDHSSS PMSPEEEEIF
     NKLRGTDIFD HEQGLILLRK MTRSSEDLRV SLCTDRILSF LRSLLVSRYN LVQTNAAASV
     VNLSLEKQNK VKIVRSGFVP LLIDVLKSGT TEAQEHVAGA LFSLALEDEN KMVIGVLGAV
     EPLLHALRSS ESERARQDAA LALYHLSLIP SNRTRLVRAG AVPTLLSMVR SGDSTSRILL
     VLCNLAACPD GKGAMLDGNA VAILVGKLRE VGGGDSEAAR ENCVAVLLTL CQGNLRFRGL
     ASEAGAEEVL MEVEENGNER VKEKASKILL AMRGGGGGES EFGENAEARE WNRMLEATGL
     SRTQFQGGQN GGFAYSSQF