TPR4_ARATH
ID TPR4_ARATH Reviewed; 1135 AA.
AC Q27GK7; B9DHS5; Q0WMG2; Q3EB60; Q9LVZ2;
DT 15-JUN-2010, integrated into UniProtKB/Swiss-Prot.
DT 15-JUN-2010, sequence version 2.
DT 25-MAY-2022, entry version 125.
DE RecName: Full=Topless-related protein 4;
DE AltName: Full=WUS-interacting protein 2;
GN Name=TPR4; Synonyms=WSIP2; OrderedLocusNames=At3g15880; ORFNames=MSJ11.27;
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=10819329; DOI=10.1093/dnares/7.2.131;
RA Sato S., Nakamura Y., Kaneko T., Katoh T., Asamizu E., Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 3. I. Sequence
RT features of the regions of 4,504,864 bp covered by sixty P1 and TAC
RT clones.";
RL DNA Res. 7:131-135(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] (ISOFORM 1).
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] OF 395-1135 (ISOFORM 1).
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 NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 788-1135 (ISOFORM 1).
RC STRAIN=cv. Columbia;
RX PubMed=19423640; DOI=10.1093/dnares/dsp009;
RA Iida K., Fukami-Kobayashi K., Toyoda A., Sakaki Y., Kobayashi M., Seki M.,
RA Shinozaki K.;
RT "Analysis of multiple occurrences of alternative splicing events in
RT Arabidopsis thaliana using novel sequenced full-length cDNAs.";
RL DNA Res. 16:155-164(2009).
RN [6]
RP INTERACTION WITH WUS.
RX PubMed=16461579; DOI=10.1105/tpc.105.039107;
RA Kieffer M., Stern Y., Cook H., Clerici E., Maulbetsch C., Laux T.,
RA Davies B.;
RT "Analysis of the transcription factor WUSCHEL and its functional homologue
RT in Antirrhinum reveals a potential mechanism for their roles in meristem
RT maintenance.";
RL Plant Cell 18:560-573(2006).
RN [7]
RP GENE FAMILY, AND NOMENCLATURE.
RX PubMed=16763149; DOI=10.1126/science.1123841;
RA Long J.A., Ohno C., Smith Z.R., Meyerowitz E.M.;
RT "TOPLESS regulates apical embryonic fate in Arabidopsis.";
RL Science 312:1520-1523(2006).
RN [8]
RP INTERACTION WITH SPEAR3/TIE1.
RX PubMed=23444332; DOI=10.1105/tpc.113.109223;
RA Tao Q., Guo D., Wei B., Zhang F., Pang C., Jiang H., Zhang J., Wei T.,
RA Gu H., Qu L.J., Qin G.;
RT "The TIE1 transcriptional repressor links TCP transcription factors with
RT TOPLESS/TOPLESS-RELATED corepressors and modulates leaf development in
RT Arabidopsis.";
RL Plant Cell 25:421-437(2013).
RN [9]
RP INTERACTION WITH SPL.
RX PubMed=25527103; DOI=10.1016/j.jgg.2014.08.009;
RA Chen G.H., Sun J.Y., Liu M., Liu J., Yang W.C.;
RT "SPOROCYTELESS is a novel embryophyte-specific transcription repressor that
RT interacts with TPL and TCP proteins in Arabidopsis.";
RL J. Genet. Genomics 41:617-625(2014).
RN [10]
RP FUNCTION, INTERACTION WITH GAF1/IDD2, AND SUBCELLULAR LOCATION.
RC STRAIN=cv. Columbia;
RX PubMed=25035403; DOI=10.1105/tpc.114.125690;
RA Fukazawa J., Teramura H., Murakoshi S., Nasuno K., Nishida N., Ito T.,
RA Yoshida M., Kamiya Y., Yamaguchi S., Takahashi Y.;
RT "DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of
RT gibberellin homeostasis and signaling in Arabidopsis.";
RL Plant Cell 26:2920-2938(2014).
RN [11]
RP INTERACTION WITH SPL.
RX PubMed=25378179; DOI=10.1038/cr.2014.145;
RA Wei B., Zhang J., Pang C., Yu H., Guo D., Jiang H., Ding M., Chen Z.,
RA Tao Q., Gu H., Qu L.J., Qin G.;
RT "The molecular mechanism of sporocyteless/nozzle in controlling Arabidopsis
RT ovule development.";
RL Cell Res. 25:121-134(2015).
RN [12]
RP SUBUNIT, AND DOMAIN.
RX PubMed=26601214; DOI=10.1126/sciadv.1500107;
RA Ke J., Ma H., Gu X., Thelen A., Brunzelle J.S., Li J., Xu H.E., Melcher K.;
RT "Structural basis for recognition of diverse transcriptional repressors by
RT the TOPLESS family of corepressors.";
RL Sci. Adv. 1:E1500107-E1500107(2015).
CC -!- FUNCTION: Transcription corepressor of Zinc finger transcription
CC factors GAF1/IDD2 and ENY/IDD1 in regulation of gibberellin homeostasis
CC and signaling. {ECO:0000269|PubMed:25035403}.
CC -!- SUBUNIT: Tetramer (PubMed:26601214). Interacts with WUS (via the C-
CC terminal domain) (PubMed:16461579). Interacts with SPL (via EAR motif)
CC (PubMed:25527103, PubMed:25378179). Interacts with SPEAR3/TIE1
CC (PubMed:23444332). Binds to and corepresses GAF1/IDD2 at the promoter
CC of GA20OX2 gene (PubMed:25035403). {ECO:0000269|PubMed:16461579,
CC ECO:0000269|PubMed:23444332, ECO:0000269|PubMed:25035403,
CC ECO:0000269|PubMed:25378179, ECO:0000269|PubMed:25527103,
CC ECO:0000269|PubMed:26601214}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:25035403}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q27GK7-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q27GK7-2; Sequence=VSP_039296;
CC -!- DOMAIN: The N-terminal TOPLESS domain (TPD) (1-209) binds directly to a
CC 12-amino acid LxLxL EAR motif peptide. {ECO:0000269|PubMed:26601214}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AY039963; Type=Frameshift; Evidence={ECO:0000305};
CC Sequence=BAB02318.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AB017071; BAB02318.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002686; AEE75740.1; -; Genomic_DNA.
DR EMBL; CP002686; AEE75741.1; -; Genomic_DNA.
DR EMBL; CP002686; ANM63812.1; -; Genomic_DNA.
DR EMBL; AY039963; -; NOT_ANNOTATED_CDS; mRNA.
DR EMBL; AK229865; BAF01694.1; -; mRNA.
DR EMBL; AK317630; BAH20292.1; -; mRNA.
DR RefSeq; NP_001325883.1; NM_001338190.1. [Q27GK7-1]
DR RefSeq; NP_188209.3; NM_112458.5. [Q27GK7-2]
DR RefSeq; NP_851003.2; NM_180672.4. [Q27GK7-1]
DR AlphaFoldDB; Q27GK7; -.
DR BioGRID; 6165; 34.
DR IntAct; Q27GK7; 1.
DR STRING; 3702.AT3G15880.2; -.
DR iPTMnet; Q27GK7; -.
DR PaxDb; Q27GK7; -.
DR PRIDE; Q27GK7; -.
DR ProteomicsDB; 228323; -. [Q27GK7-1]
DR EnsemblPlants; AT3G15880.1; AT3G15880.1; AT3G15880. [Q27GK7-1]
DR EnsemblPlants; AT3G15880.2; AT3G15880.2; AT3G15880. [Q27GK7-2]
DR EnsemblPlants; AT3G15880.4; AT3G15880.4; AT3G15880. [Q27GK7-1]
DR GeneID; 820831; -.
DR Gramene; AT3G15880.1; AT3G15880.1; AT3G15880. [Q27GK7-1]
DR Gramene; AT3G15880.2; AT3G15880.2; AT3G15880. [Q27GK7-2]
DR Gramene; AT3G15880.4; AT3G15880.4; AT3G15880. [Q27GK7-1]
DR KEGG; ath:AT3G15880; -.
DR Araport; AT3G15880; -.
DR TAIR; locus:2093222; AT3G15880.
DR eggNOG; KOG0266; Eukaryota.
DR HOGENOM; CLU_003103_1_0_1; -.
DR InParanoid; Q27GK7; -.
DR OMA; SAGPICI; -.
DR OrthoDB; 64413at2759; -.
DR PhylomeDB; Q27GK7; -.
DR PRO; PR:Q27GK7; -.
DR Proteomes; UP000006548; Chromosome 3.
DR ExpressionAtlas; Q27GK7; baseline and differential.
DR Genevisible; Q27GK7; AT.
DR GO; GO:0005634; C:nucleus; IDA:UniProtKB.
DR GO; GO:0003714; F:transcription corepressor activity; IDA:UniProtKB.
DR GO; GO:0010336; P:gibberellic acid homeostasis; IDA:UniProtKB.
DR GO; GO:0009938; P:negative regulation of gibberellic acid mediated signaling pathway; IDA:UniProtKB.
DR GO; GO:1903507; P:negative regulation of nucleic acid-templated transcription; IDA:UniProtKB.
DR GO; GO:0010072; P:primary shoot apical meristem specification; IGI:TAIR.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; IBA:GO_Central.
DR Gene3D; 2.130.10.10; -; 4.
DR InterPro; IPR006595; CTLH_C.
DR InterPro; IPR006594; LisH.
DR InterPro; IPR027728; Topless_fam.
DR InterPro; IPR015943; WD40/YVTN_repeat-like_dom_sf.
DR InterPro; IPR001680; WD40_repeat.
DR InterPro; IPR036322; WD40_repeat_dom_sf.
DR PANTHER; PTHR44083; PTHR44083; 1.
DR Pfam; PF00400; WD40; 3.
DR SMART; SM00668; CTLH; 1.
DR SMART; SM00667; LisH; 1.
DR SMART; SM00320; WD40; 11.
DR SUPFAM; SSF50978; SSF50978; 2.
DR PROSITE; PS50897; CTLH; 1.
DR PROSITE; PS50896; LISH; 1.
DR PROSITE; PS00678; WD_REPEATS_1; 1.
DR PROSITE; PS50082; WD_REPEATS_2; 2.
DR PROSITE; PS50294; WD_REPEATS_REGION; 2.
PE 1: Evidence at protein level;
KW Alternative splicing; Nucleus; Phosphoprotein; Reference proteome; Repeat;
KW Repressor; Transcription; Transcription regulation; WD repeat.
FT CHAIN 1..1135
FT /note="Topless-related protein 4"
FT /id="PRO_0000394735"
FT DOMAIN 4..36
FT /note="LisH"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00126"
FT DOMAIN 34..92
FT /note="CTLH"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00058"
FT REPEAT 355..395
FT /note="WD 1"
FT REPEAT 417..456
FT /note="WD 2"
FT REPEAT 462..503
FT /note="WD 3"
FT REPEAT 506..547
FT /note="WD 4"
FT REPEAT 550..593
FT /note="WD 5"
FT REPEAT 597..636
FT /note="WD 6"
FT REPEAT 638..680
FT /note="WD 7"
FT REPEAT 776..815
FT /note="WD 8"
FT REPEAT 843..881
FT /note="WD 9"
FT REPEAT 884..924
FT /note="WD 10"
FT REPEAT 927..966
FT /note="WD 11"
FT REPEAT 1020..1059
FT /note="WD 12"
FT REGION 281..303
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 1095..1135
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 286..302
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1119..1135
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOD_RES 214
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q94AI7"
FT VAR_SEQ 1135
FT /note="R -> SDS (in isoform 2)"
FT /evidence="ECO:0000305"
FT /id="VSP_039296"
SQ SEQUENCE 1135 AA; 124104 MW; 78F8FDFE56D7204F CRC64;
MSSLSRELVF LILQFLDEEK FKDTVHRLEK ESGFFFNMRY FEDSVTAGEW DDVEKYLSGF
TKVDDNRYSM KIFFEIRKQK YLEALDKKDH AKAVDILVKE LKVFSTFNEE LFKEITMLLT
LTNFRENEQL SKYGDTKSAR GIMLGELKKL IEANPLFRDK LQFPSLKNSR LRTLINQSLN
WQHQLCKNPR PNPDIKTLFV DHTCGHPNGA HTPSPTTNHL MGSVPKVGGF PPLGAHGPFQ
PTPAPLTTSL AGWMPNPSVQ HPTVSAGPIG LGAPNSAVSM LKRERPRSPP TNSLSMDYQT
ADSESVLKRP RPFGISDGVN NLPVNVLPVT YPGQSHAHAT YSTDDLPKNV SRILSQGSAI
KSMDFHPVQQ TMLLVGTNLG DIAIWEVGSR EKLVSRSFKV WDLATCTVNL QASLASEYTA
AVNRVVWSPD GGLLGVAYSK HIVHIYSYHG GEDLRNHLEI DAHAGNVNDL AFSQPNQQLC
VVTCGEDKTI KVWDAVTGNK LHTFEGHEAP VYSVCPHQKE NIQFIFSTAV DGKIKAWLYD
NMGSRVDYDA PGRSCTSMAY CADGTRLFSC GTSKEGESFI VEWNESEGAV KRTYLGLGKR
SVGVVQFDTM KNKFLVAGDE FQVKFWDMDS VDLLSSTAAE GGLPSSPCLR INKEGTLLAV
STTDNGIKIL ANAEGSRILH SMANRGLDSS RAPPGSVAKG PIVGTFGTPN SSTGMSLSMG
ERSGPVASVT GLNGDNRSLP DVKPRIADDA EKSKTWKLTE ISERSQLRTL RLPDTLLPAR
VVKLIYTNSG GAILALAENA AHKLWKWQKS ERNLLGKANS NVPPQLWQPS SGVLMTNDTR
EGNKEDVVPC FALSKNDSYV MSASGGKISL FNMMTFKTMT TFMAPPPAAT SLAFHPQDNN
IIAIGMDDSS IQIYNVRVDE VKSKLKGHQK RVTGLAFSNV LNVLVSSGAD SQLCVWSMDG
WEKQASKQIQ IPSGHSPNPL AHTRVQFHQD QIHVLVVHAS QLAIYEAPKL ENMKQWIPKE
SSGSVTDAVY SCDSQSIYAA FDDGSVSILT ATTLQLKCRI GPNSYLPSNP SSRVYPATVA
AHPSEPNQFA VGLTDGGVHV IEPPGPEGKW GISAPPENGA GPSVSSAPGS DQQPR
