SKI3_ARATH
ID SKI3_ARATH Reviewed; 1168 AA.
AC F4I3Z5; Q9C9J5;
DT 29-APR-2015, integrated into UniProtKB/Swiss-Prot.
DT 28-JUN-2011, sequence version 1.
DT 03-AUG-2022, entry version 73.
DE RecName: Full=Tetratricopeptide repeat protein SKI3 {ECO:0000305};
DE AltName: Full=Protein SKI3 homolog {ECO:0000303|PubMed:22511887};
DE Short=AtSKI3 {ECO:0000303|PubMed:22511887};
GN Name=SKI3 {ECO:0000303|PubMed:22511887};
GN OrderedLocusNames=At1g76630 {ECO:0000312|Araport:AT1G76630};
GN ORFNames=F14G6.23 {ECO:0000312|EMBL:AAG51962.1};
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=11130712; DOI=10.1038/35048500;
RA Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O.,
RA Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E.,
RA Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K., Conn L.,
RA Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P.,
RA Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D.,
RA Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J.,
RA Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L.,
RA Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A.,
RA Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A.,
RA Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M.,
RA Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M.,
RA Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P.,
RA Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D.,
RA Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D.,
RA Yu G., Fraser C.M., Venter J.C., Davis R.W.;
RT "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana.";
RL Nature 408:816-820(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 IDENTIFICATION BY MASS SPECTROMETRY, AND FUNCTION.
RX PubMed=22511887; DOI=10.1371/journal.pgen.1002652;
RA Dorcey E., Rodriguez-Villalon A., Salinas P., Santuari L., Pradervand S.,
RA Harshman K., Hardtke C.S.;
RT "Context-dependent dual role of SKI8 homologs in mRNA synthesis and
RT turnover.";
RL PLoS Genet. 8:E1002652-E1002652(2012).
CC -!- FUNCTION: Component of the SKI complex which is thought to be involved
CC in exosome-mediated RNA decay and associates with transcriptionally
CC active genes in a manner dependent on PAF1 complex (PAF1C).
CC {ECO:0000269|PubMed:22511887}.
CC -!- SUBUNIT: Component of the cytoplasmic SKI complex, which consists of
CC SKI2, SKI3 and VIP3/SKI8. {ECO:0000269|PubMed:22511887}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000269|PubMed:22511887}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=1;
CC Comment=A number of isoforms are produced. According to EST
CC sequences. {ECO:0000305};
CC Name=1;
CC IsoId=F4I3Z5-1; Sequence=Displayed;
CC -!- SEQUENCE CAUTION:
CC Sequence=AAG51962.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AC015450; AAG51962.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002684; AEE35867.1; -; Genomic_DNA.
DR PIR; E96794; E96794.
DR RefSeq; NP_001185412.1; NM_001198483.2. [F4I3Z5-1]
DR AlphaFoldDB; F4I3Z5; -.
DR SMR; F4I3Z5; -.
DR STRING; 3702.AT1G76630.2; -.
DR iPTMnet; F4I3Z5; -.
DR PaxDb; F4I3Z5; -.
DR PRIDE; F4I3Z5; -.
DR EnsemblPlants; AT1G76630.2; AT1G76630.2; AT1G76630. [F4I3Z5-1]
DR GeneID; 843996; -.
DR Gramene; AT1G76630.2; AT1G76630.2; AT1G76630. [F4I3Z5-1]
DR KEGG; ath:AT1G76630; -.
DR Araport; AT1G76630; -.
DR TAIR; locus:2011666; AT1G76630.
DR eggNOG; KOG1127; Eukaryota.
DR InParanoid; F4I3Z5; -.
DR OMA; SLFYLAC; -.
DR PRO; PR:F4I3Z5; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; F4I3Z5; baseline and differential.
DR Genevisible; F4I3Z5; AT.
DR GO; GO:0005737; C:cytoplasm; IDA:UniProtKB.
DR GO; GO:0055087; C:Ski complex; IDA:UniProtKB.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0070478; P:nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay; IMP:UniProtKB.
DR GO; GO:0034427; P:nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'; IBA:GO_Central.
DR GO; GO:1904278; P:positive regulation of wax biosynthetic process; IGI:TAIR.
DR GO; GO:0016441; P:post-transcriptional gene silencing; IMP:TAIR.
DR Gene3D; 1.25.40.10; -; 3.
DR InterPro; IPR039226; Ski3/TTC37.
DR InterPro; IPR011990; TPR-like_helical_dom_sf.
DR InterPro; IPR013105; TPR_2.
DR InterPro; IPR019734; TPR_repeat.
DR PANTHER; PTHR15704; PTHR15704; 1.
DR Pfam; PF07719; TPR_2; 1.
DR SMART; SM00028; TPR; 6.
DR SUPFAM; SSF48452; SSF48452; 3.
DR PROSITE; PS50005; TPR; 5.
DR PROSITE; PS50293; TPR_REGION; 2.
PE 1: Evidence at protein level;
KW Alternative splicing; Cytoplasm; DNA-binding; Reference proteome; Repeat;
KW TPR repeat; Transcription; Transcription regulation.
FT CHAIN 1..1168
FT /note="Tetratricopeptide repeat protein SKI3"
FT /id="PRO_0000432763"
FT REPEAT 17..51
FT /note="TPR 1"
FT /evidence="ECO:0000255"
FT REPEAT 52..86
FT /note="TPR 2"
FT /evidence="ECO:0000255"
FT REPEAT 121..154
FT /note="TPR 3"
FT /evidence="ECO:0000255"
FT REPEAT 155..188
FT /note="TPR 4"
FT /evidence="ECO:0000255"
FT REPEAT 190..222
FT /note="TPR 5"
FT /evidence="ECO:0000255"
FT REPEAT 301..336
FT /note="TPR 6"
FT /evidence="ECO:0000255"
FT REPEAT 412..445
FT /note="TPR 7"
FT /evidence="ECO:0000255"
FT REPEAT 447..479
FT /note="TPR 8"
FT /evidence="ECO:0000255"
FT REPEAT 515..548
FT /note="TPR 9"
FT /evidence="ECO:0000255"
FT REPEAT 703..740
FT /note="TPR 10"
FT /evidence="ECO:0000255"
FT REPEAT 920..953
FT /note="TPR 11"
FT /evidence="ECO:0000255"
SQ SEQUENCE 1168 AA; 129877 MW; 5520EAE73572924E CRC64;
MELEQLKKSV EENPDDSSLQ FELGLYLWDN GGDSEKAAEH FVLSAKSDPN NAVAFKYLGH
YYSRVTLDLN RAAKCYQRAV LINPNDSDSG EALCDLFDRQ GKEILEIAVC RDASEKSPKA
FWAFCRLGYI QLHQKKWSEA VQSLQHAIRG YPTMSDLWEA LGLAYQRLGM FTAAIKAYGR
AIELDETKIF ALVESANIFL MLGSYRKGVE LFEQALKISP QNISVLYGLA SGLLSWSKEC
INLGAFGWAA SLLEDARKAA KASSELASSM SCIWKLHGDI QLTYARCFPW SGGTENSEFT
LKTFSDSILS WRSICYSAAL SAKASYQRAL HLAPWQANVY TDIAITCDLV SSLSDDSDTS
SSWKLPEKMV LGALLLECEN SEFWVALGCM SDNSALKLHA LIRALHLDVS LAVAWAFMGQ
IFRESDEMKF AKQAFDCARS IDPTLALPWA GSADTYARES TSDEAFESCL RAAQISPLAE
FQVGLAWLAL LQGNISSPQI FACIEQAVQR SPYYPEPHNL HGLVCEARHN YHTAIASYRL
ALAAMSIYPE SSVKSHAGKV SINLVRSLSK AGRFKESVME CANLKSKGLL DAGGLQIYAF
SLWRTGQNDS ALSVIRDLAG RISTREKTSI AFPISFICSL LYCISGLDSA ITSIQKMPKD
FFQSSKISFI VSAIHSLDQS DRLQSIVAST RSYITSQEEI VAMHYLIALS KLLKTGAGDF
LGYEKGIAHL SKAIHMYPHS NLIRNLLGYI LLAGEGMKDA CTASRCCIIN VSECANKEGL
KSALEVLGGG SVACNVIGNT APRFSFPTCH CQYLNAPVVV VELQRFLHQE PSNSSVRYLL
ILNLVQKARE QRFPRQLCRA IERLISVALS DETCSKEGEY KKFQLLLCAS EISLQMGNIA
ESINHARKAS SLSLPSSYLF LGHLQLCRAY AANGSTKNMQ EEYRACLELK TDSNIGWICL
KLIESQYNLE PDANLLEMSL QECSSQKKNS WKEWMAVYSL ARGLDSTGKK DFFSAEEFLA
QACSLLNSES CLLLCHGAVC MELARQSNDS QFLSLAVKSL SKVQASSLFP LPIVYTLLAQ
AHGSLGSKEK WEKNLRLEWF CWPPEMRPAE VYFQMHILAR QSEDRPETTS GIENYQSPEK
WVIRAIHTDP SCRRYWKVLD KLVQHPMS
