WDR12_ARATH
ID WDR12_ARATH Reviewed; 433 AA.
AC Q9LF27;
DT 02-NOV-2016, integrated into UniProtKB/Swiss-Prot.
DT 01-OCT-2000, sequence version 1.
DT 03-AUG-2022, entry version 161.
DE RecName: Full=Ribosome biogenesis protein WDR12 homolog {ECO:0000255|HAMAP-Rule:MF_03029};
DE AltName: Full=Pescadillo-interacting protein 2 {ECO:0000305};
DE Short=AtPEIP2 {ECO:0000303|PubMed:25443833};
GN Name=WDR12 {ECO:0000305}; Synonyms=PEIP2 {ECO:0000303|PubMed:25443833};
GN OrderedLocusNames=At5g15550 {ECO:0000312|Araport:AT5G15550};
GN ORFNames=T20K14_160 {ECO:0000312|EMBL:CAC01754.1};
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=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 [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 ACETYLATION [LARGE SCALE ANALYSIS] AT MET-1, AND IDENTIFICATION BY MASS
RP SPECTROMETRY [LARGE SCALE ANALYSIS].
RX PubMed=22223895; DOI=10.1074/mcp.m111.015131;
RA Bienvenut W.V., Sumpton D., Martinez A., Lilla S., Espagne C., Meinnel T.,
RA Giglione C.;
RT "Comparative large-scale characterisation of plant vs. mammal proteins
RT reveals similar and idiosyncratic N-alpha acetylation features.";
RL Mol. Cell. Proteomics 11:M111.015131-M111.015131(2012).
RN [5]
RP INTERACTION WITH PES AND BOP1, AND SUBCELLULAR LOCATION.
RX PubMed=23909681; DOI=10.1111/tpj.12302;
RA Cho H.K., Ahn C.S., Lee H.S., Kim J.K., Pai H.S.;
RT "Pescadillo plays an essential role in plant cell growth and survival by
RT modulating ribosome biogenesis.";
RL Plant J. 76:393-405(2013).
RN [6]
RP INTERACTION WITH PES, AND SUBCELLULAR LOCATION.
RX PubMed=25443833; DOI=10.1016/j.plantsci.2014.08.012;
RA Zografidis A., Kapolas G., Podia V., Beri D., Papadopoulou K., Milioni D.,
RA Haralampidis K.;
RT "Transcriptional regulation and functional involvement of the Arabidopsis
RT pescadillo ortholog AtPES in root development.";
RL Plant Sci. 229:53-65(2014).
CC -!- FUNCTION: Required for maturation of ribosomal RNAs and formation of
CC the large ribosomal subunit. {ECO:0000255|HAMAP-Rule:MF_03029}.
CC -!- SUBUNIT: Interacts with PES (PubMed:23909681, PubMed:25443833).
CC Interacts with BOP1 (PubMed:23909681). {ECO:0000269|PubMed:23909681,
CC ECO:0000269|PubMed:25443833}.
CC -!- SUBCELLULAR LOCATION: Nucleus, nucleolus {ECO:0000255|HAMAP-
CC Rule:MF_03029, ECO:0000269|PubMed:23909681,
CC ECO:0000269|PubMed:25443833}. Nucleus, nucleoplasm {ECO:0000255|HAMAP-
CC Rule:MF_03029}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=1;
CC Name=1;
CC IsoId=Q9LF27-1; Sequence=Displayed;
CC -!- MISCELLANEOUS: [Isoform 1]: A number of isoforms are produced.
CC According to EST sequences. {ECO:0000305}.
CC -!- SIMILARITY: Belongs to the WD repeat WDR12/YTM1 family.
CC {ECO:0000255|HAMAP-Rule:MF_03029}.
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DR EMBL; AL391143; CAC01754.1; -; Genomic_DNA.
DR EMBL; CP002688; AED92176.1; -; Genomic_DNA.
DR EMBL; CP002688; ANM71061.1; -; Genomic_DNA.
DR EMBL; AY064011; AAL36367.1; -; mRNA.
DR EMBL; AY091257; AAM14196.1; -; mRNA.
DR PIR; T51533; T51533.
DR RefSeq; NP_001332618.1; NM_001343408.1. [Q9LF27-1]
DR RefSeq; NP_197059.1; NM_121559.3. [Q9LF27-1]
DR AlphaFoldDB; Q9LF27; -.
DR SMR; Q9LF27; -.
DR STRING; 3702.AT5G15550.1; -.
DR iPTMnet; Q9LF27; -.
DR PaxDb; Q9LF27; -.
DR PRIDE; Q9LF27; -.
DR ProteomicsDB; 242783; -. [Q9LF27-1]
DR EnsemblPlants; AT5G15550.1; AT5G15550.1; AT5G15550. [Q9LF27-1]
DR EnsemblPlants; AT5G15550.3; AT5G15550.3; AT5G15550. [Q9LF27-1]
DR GeneID; 831408; -.
DR Gramene; AT5G15550.1; AT5G15550.1; AT5G15550. [Q9LF27-1]
DR Gramene; AT5G15550.3; AT5G15550.3; AT5G15550. [Q9LF27-1]
DR KEGG; ath:AT5G15550; -.
DR Araport; AT5G15550; -.
DR TAIR; locus:2180952; AT5G15550.
DR eggNOG; KOG0313; Eukaryota.
DR HOGENOM; CLU_000288_57_0_1; -.
DR InParanoid; Q9LF27; -.
DR OMA; VDCTRTK; -.
DR PhylomeDB; Q9LF27; -.
DR PRO; PR:Q9LF27; -.
DR Proteomes; UP000006548; Chromosome 5.
DR ExpressionAtlas; Q9LF27; baseline and differential.
DR GO; GO:0080008; C:Cul4-RING E3 ubiquitin ligase complex; ISS:TAIR.
DR GO; GO:0005730; C:nucleolus; HDA:TAIR.
DR GO; GO:0005654; C:nucleoplasm; IEA:UniProtKB-SubCell.
DR GO; GO:0009506; C:plasmodesma; HDA:TAIR.
DR GO; GO:0030687; C:preribosome, large subunit precursor; IEA:UniProtKB-UniRule.
DR GO; GO:0043021; F:ribonucleoprotein complex binding; IEA:UniProtKB-UniRule.
DR GO; GO:0000466; P:maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); IEA:UniProtKB-UniRule.
DR GO; GO:0000463; P:maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); IEA:UniProtKB-UniRule.
DR Gene3D; 2.130.10.10; -; 1.
DR HAMAP; MF_03029; WDR12; 1.
DR InterPro; IPR020472; G-protein_beta_WD-40_rep.
DR InterPro; IPR012972; NLE.
DR InterPro; IPR015943; WD40/YVTN_repeat-like_dom_sf.
DR InterPro; IPR001680; WD40_repeat.
DR InterPro; IPR019775; WD40_repeat_CS.
DR InterPro; IPR036322; WD40_repeat_dom_sf.
DR InterPro; IPR028599; WDR12/Ytm1.
DR Pfam; PF08154; NLE; 1.
DR Pfam; PF00400; WD40; 4.
DR PRINTS; PR00320; GPROTEINBRPT.
DR SMART; SM00320; WD40; 7.
DR SUPFAM; SSF50978; SSF50978; 1.
DR PROSITE; PS00678; WD_REPEATS_1; 2.
DR PROSITE; PS50082; WD_REPEATS_2; 3.
DR PROSITE; PS50294; WD_REPEATS_REGION; 1.
PE 1: Evidence at protein level;
KW Acetylation; Alternative splicing; Nucleus; Reference proteome; Repeat;
KW Ribosome biogenesis; rRNA processing; WD repeat.
FT CHAIN 1..433
FT /note="Ribosome biogenesis protein WDR12 homolog"
FT /id="PRO_0000437496"
FT REPEAT 108..146
FT /note="WD 1"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REPEAT 148..191
FT /note="WD 2"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REPEAT 203..242
FT /note="WD 3"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REPEAT 270..308
FT /note="WD 4"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REPEAT 310..350
FT /note="WD 5"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REPEAT 356..396
FT /note="WD 6"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REPEAT 399..433
FT /note="WD 7"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REGION 12..96
FT /note="Ubiquitin-like (UBL) domain"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_03029"
FT REGION 238..263
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 242..256
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOD_RES 1
FT /note="N-acetylmethionine"
FT /evidence="ECO:0007744|PubMed:22223895"
SQ SEQUENCE 433 AA; 47338 MW; 8DC768ACCEB4D3B8 CRC64;
MDIDGEDVSR RLHVKFVTKL DSPFKVPVNS VAIPSNVTRL GLSSIVNSII ESENPEWKTE
PFDFLIDGEL IRMSLEEFLL AKGISAERTL EIEYIRAVTP RKEEEPSLHD DWVSAVNGSS
PRFILTGCYD GLGRVWSSAG SCSHILEGHS GAISSVALVN SNDAETVTVA TASKDRTLRL
FKFDPAESVD STTKVRAYKI LRGHKASVQS VSAQKSGNMV CSSSWDCTIN LWNTNESTSE
GESVSVKKRK GNNQAEESQS EGEAVTSLVG HTQCVSSVVW PEHDVIYSSS WDHSVRRWDV
ETGKDSLNLF CGKALNTVDV GGESSALIAA GGSDPILRVW DPRKPGTSAP VFQFSSHSSW
ISACKWHKSS WFHLLSASYD GKIMLWDLRT AWPLSVIDTH NDKVLSADWW KGESVVSGGA
DSNLRISSGI AIS
