ID   NPL41_ARATH             Reviewed;         413 AA.
AC   Q9LYC2;
DT   30-MAY-2006, integrated into UniProtKB/Swiss-Prot.
DT   01-OCT-2000, sequence version 1.
DT   25-MAY-2022, entry version 118.
DE   RecName: Full=NPL4-like protein 1;
GN   OrderedLocusNames=At3g63000; ORFNames=T20O10.100;
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=11130713; DOI=10.1038/35048706;
RA   Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B.,
RA   Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M.,
RA   Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V.,
RA   Choisne N., Artiguenave F., Robert C., Brottier P., Wincker P.,
RA   Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M.,
RA   Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H.,
RA   Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H.,
RA   Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A.,
RA   Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H.,
RA   Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J.,
RA   Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B.,
RA   Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D.,
RA   de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E.,
RA   Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G.,
RA   Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X.,
RA   Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M.,
RA   Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B.,
RA   Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J.,
RA   Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C.,
RA   Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y.,
RA   Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K.,
RA   Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A.,
RA   Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T.,
RA   Watanabe A., Yamada M., Yasuda M., Tabata S.;
RT   "Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana.";
RL   Nature 408:820-822(2000).
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   STRUCTURE BY NMR OF 2-95.
RG   RIKEN structural genomics initiative (RSGI);
RT   "Solution structure of a novel beta-grasp fold like domain of hypothetical
RT   protein (Arabidopsis thaliana).";
RL   Submitted (JUN-2005) to the PDB data bank.
CC   -!- FUNCTION: May be part of a complex that binds ubiquitinated proteins
CC       and that is necessary for the export of misfolded proteins from the ER
CC       to the cytoplasm, where they are degraded by the proteasome.
CC       {ECO:0000250}.
CC   -!- PATHWAY: Protein degradation; proteasomal ubiquitin-dependent pathway.
CC   -!- SIMILARITY: Belongs to the NPL4 family. {ECO:0000305}.
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DR   EMBL; AL163816; CAB87745.1; -; Genomic_DNA.
DR   EMBL; CP002686; AEE80422.1; -; Genomic_DNA.
DR   EMBL; AY035064; AAK59569.1; -; mRNA.
DR   EMBL; AY056362; AAL07248.1; -; mRNA.
DR   PIR; T48089; T48089.
DR   RefSeq; NP_191859.1; NM_116165.4.
DR   PDB; 1WF9; NMR; -; A=2-95.
DR   PDBsum; 1WF9; -.
DR   AlphaFoldDB; Q9LYC2; -.
DR   BMRB; Q9LYC2; -.
DR   SMR; Q9LYC2; -.
DR   BioGRID; 10789; 2.
DR   IntAct; Q9LYC2; 2.
DR   STRING; 3702.AT3G63000.1; -.
DR   TCDB; 3.A.16.1.5; the endoplasmic reticular retrotranslocon (er-rt) family.
DR   iPTMnet; Q9LYC2; -.
DR   PaxDb; Q9LYC2; -.
DR   PRIDE; Q9LYC2; -.
DR   ProteomicsDB; 249047; -.
DR   DNASU; 825475; -.
DR   EnsemblPlants; AT3G63000.1; AT3G63000.1; AT3G63000.
DR   GeneID; 825475; -.
DR   Gramene; AT3G63000.1; AT3G63000.1; AT3G63000.
DR   KEGG; ath:AT3G63000; -.
DR   Araport; AT3G63000; -.
DR   TAIR; locus:2099142; AT3G63000.
DR   eggNOG; KOG2834; Eukaryota.
DR   HOGENOM; CLU_052923_0_0_1; -.
DR   InParanoid; Q9LYC2; -.
DR   OMA; DYTMSTA; -.
DR   OrthoDB; 1106766at2759; -.
DR   PhylomeDB; Q9LYC2; -.
DR   UniPathway; UPA00144; -.
DR   EvolutionaryTrace; Q9LYC2; -.
DR   PRO; PR:Q9LYC2; -.
DR   Proteomes; UP000006548; Chromosome 3.
DR   ExpressionAtlas; Q9LYC2; baseline and differential.
DR   Genevisible; Q9LYC2; AT.
DR   GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR   GO; GO:0043130; F:ubiquitin binding; IBA:GO_Central.
DR   GO; GO:0031625; F:ubiquitin protein ligase binding; IBA:GO_Central.
DR   GO; GO:0043161; P:proteasome-mediated ubiquitin-dependent protein catabolic process; IEA:UniProtKB-UniPathway.
DR   GO; GO:0006511; P:ubiquitin-dependent protein catabolic process; IBA:GO_Central.
DR   CDD; cd08061; MPN_NPL4; 1.
DR   InterPro; IPR037518; MPN.
DR   InterPro; IPR016563; Npl4.
DR   InterPro; IPR007717; NPL4_C.
DR   InterPro; IPR024682; Npl4_Ub-like_dom.
DR   InterPro; IPR029071; Ubiquitin-like_domsf.
DR   PANTHER; PTHR12710; PTHR12710; 2.
DR   Pfam; PF05021; NPL4; 1.
DR   Pfam; PF11543; UN_NPL4; 1.
DR   SUPFAM; SSF54236; SSF54236; 1.
DR   PROSITE; PS50249; MPN; 1.
PE   1: Evidence at protein level;
KW   3D-structure; Phosphoprotein; Reference proteome; Ubl conjugation pathway.
FT   CHAIN           1..413
FT                   /note="NPL4-like protein 1"
FT                   /id="PRO_0000238458"
FT   DOMAIN          131..272
FT                   /note="MPN"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU01182"
FT   MOD_RES         104
FT                   /note="Phosphoserine"
FT                   /evidence="ECO:0000250|UniProtKB:O82264"
FT   STRAND          2..7
FT                   /evidence="ECO:0007829|PDB:1WF9"
FT   STRAND          12..17
FT                   /evidence="ECO:0007829|PDB:1WF9"
FT   HELIX           24..34
FT                   /evidence="ECO:0007829|PDB:1WF9"
FT   TURN            39..41
FT                   /evidence="ECO:0007829|PDB:1WF9"
FT   STRAND          45..47
FT                   /evidence="ECO:0007829|PDB:1WF9"
FT   HELIX           48..51
FT                   /evidence="ECO:0007829|PDB:1WF9"
FT   HELIX           56..59
FT                   /evidence="ECO:0007829|PDB:1WF9"
FT   HELIX           72..74
FT                   /evidence="ECO:0007829|PDB:1WF9"
FT   STRAND          82..84
FT                   /evidence="ECO:0007829|PDB:1WF9"
SQ   SEQUENCE   413 AA;  46497 MW;  0D1A75F5E42E0647 CRC64;
     MTMLRVRSRD GLERVSVDGP HITVSQLKTL IQDQLQIPIH NQTLSTNRNL LLAKSPSDFL
     AFTDMADPNL RISSLNLAHG SMVYLAYEGE RTIRGGPAVT PAGSFGRKMT VEDLIARQMR
     VGRQEKAHCD SVSFDRDCAN AFQHFVNESL AFAVKRGGFM YGNVSEDGQV EVNFIYEPPQ
     QGMEDNLILM RDSEEEKRVD AIALGLGMRR VGFIFNQTVT QDKKEYTLSN VEVLLAAQLH
     AESELKEWVT AVVKLEINED GGADVHFEPF QMSDMCVRLF KEGWFETEIG PEDDPKLSKL
     KKEVVVGVKD VKEVDNDFFL VLVKILDHQG PLSCTFPIEN RNTQTTMRAL KTHMERARSL
     PFVKRISDFH LLLFVAQFLD VSSDVPALAE CVRLQSHVPE GYELLIDSMA NTS