PUM5_ARATH
ID PUM5_ARATH Reviewed; 961 AA.
AC Q9LJX4; Q0WRA5;
DT 30-NOV-2010, integrated into UniProtKB/Swiss-Prot.
DT 30-NOV-2010, sequence version 2.
DT 03-AUG-2022, entry version 119.
DE RecName: Full=Pumilio homolog 5;
DE Short=APUM-5;
DE Short=AtPUM5;
GN Name=APUM5; OrderedLocusNames=At3g20250; ORFNames=MAL21.29;
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=10907853; DOI=10.1093/dnares/7.3.217;
RA Kaneko T., Katoh T., Sato S., Nakamura Y., Asamizu E., Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 3. II. Sequence
RT features of the 4,251,695 bp regions covered by 90 P1, TAC and BAC
RT clones.";
RL DNA Res. 7:217-221(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 2).
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 [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 392-961 (ISOFORM 1).
RC STRAIN=cv. Columbia;
RX PubMed=14993207; DOI=10.1101/gr.1515604;
RA Castelli V., Aury J.-M., Jaillon O., Wincker P., Clepet C., Menard M.,
RA Cruaud C., Quetier F., Scarpelli C., Schaechter V., Temple G., Caboche M.,
RA Weissenbach J., Salanoubat M.;
RT "Whole genome sequence comparisons and 'full-length' cDNA sequences: a
RT combined approach to evaluate and improve Arabidopsis genome annotation.";
RL Genome Res. 14:406-413(2004).
RN [5]
RP GENE FAMILY, FUNCTION, AND RNA-BINDING.
RX PubMed=19682068; DOI=10.1111/j.1742-4658.2009.07230.x;
RA Francischini C.W., Quaggio R.B.;
RT "Molecular characterization of Arabidopsis thaliana PUF proteins -- binding
RT specificity and target candidates.";
RL FEBS J. 276:5456-5470(2009).
RN [6]
RP GENE FAMILY.
RX PubMed=20214804; DOI=10.1186/1471-2229-10-44;
RA Tam P.P., Barrette-Ng I.H., Simon D.M., Tam M.W., Ang A.L., Muench D.G.;
RT "The Puf family of RNA-binding proteins in plants: phylogeny, structural
RT modeling, activity and subcellular localization.";
RL BMC Plant Biol. 10:44-44(2010).
CC -!- FUNCTION: Sequence-specific RNA-binding protein that regulates
CC translation and mRNA stability by binding the 3'-UTR of target mRNAs.
CC Binds the APUM-binding elements (APBEs) in the 3'-UTR mRNA sequence of
CC CLV1, PNH, WUS and FAS2. {ECO:0000269|PubMed:19682068}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000305}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q9LJX4-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q9LJX4-2; Sequence=VSP_040176, VSP_040177, VSP_040178;
CC -!- DOMAIN: The pumilio repeats mediate the association with RNA by packing
CC together to form a right-handed superhelix that approximates a half
CC donut. The number as well as the specific sequence of the repeats
CC determine the specificity for target mRNAs (By similarity).
CC {ECO:0000250}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAB01884.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=BX824276; Type=Frameshift; Evidence={ECO:0000305};
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DR EMBL; AP000383; BAB01884.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002686; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; AK228410; BAF00344.1; -; mRNA.
DR EMBL; BX824276; -; NOT_ANNOTATED_CDS; mRNA.
DR AlphaFoldDB; Q9LJX4; -.
DR SMR; Q9LJX4; -.
DR BioGRID; 6901; 3.
DR STRING; 3702.AT3G20250.1; -.
DR PaxDb; Q9LJX4; -.
DR PeptideAtlas; Q9LJX4; -.
DR PRIDE; Q9LJX4; -.
DR Araport; AT3G20250; -.
DR TAIR; locus:2087560; AT3G20250.
DR eggNOG; KOG1488; Eukaryota.
DR HOGENOM; CLU_004017_1_1_1; -.
DR InParanoid; Q9LJX4; -.
DR PhylomeDB; Q9LJX4; -.
DR PRO; PR:Q9LJX4; -.
DR Proteomes; UP000006548; Chromosome 3.
DR ExpressionAtlas; Q9LJX4; baseline and differential.
DR Genevisible; Q9LJX4; AT.
DR GO; GO:0005737; C:cytoplasm; IBA:GO_Central.
DR GO; GO:0005829; C:cytosol; HDA:TAIR.
DR GO; GO:0000325; C:plant-type vacuole; HDA:TAIR.
DR GO; GO:0003729; F:mRNA binding; IDA:UniProtKB.
DR GO; GO:0003727; F:single-stranded RNA binding; IDA:TAIR.
DR GO; GO:0061158; P:3'-UTR-mediated mRNA destabilization; IMP:TAIR.
DR GO; GO:0051607; P:defense response to virus; IMP:TAIR.
DR GO; GO:0009819; P:drought recovery; IMP:TAIR.
DR GO; GO:0010608; P:post-transcriptional regulation of gene expression; IBA:GO_Central.
DR GO; GO:0006970; P:response to osmotic stress; IMP:TAIR.
DR GO; GO:0009651; P:response to salt stress; IMP:TAIR.
DR CDD; cd07920; Pumilio; 1.
DR Gene3D; 1.25.10.10; -; 1.
DR InterPro; IPR011989; ARM-like.
DR InterPro; IPR016024; ARM-type_fold.
DR InterPro; IPR033133; PUM-HD.
DR InterPro; IPR033712; Pumilio_RNA-bd.
DR InterPro; IPR001313; Pumilio_RNA-bd_rpt.
DR Pfam; PF00806; PUF; 8.
DR SMART; SM00025; Pumilio; 8.
DR SUPFAM; SSF48371; SSF48371; 1.
DR PROSITE; PS50302; PUM; 8.
DR PROSITE; PS50303; PUM_HD; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Cytoplasm; Phosphoprotein; Reference proteome;
KW Repeat; RNA-binding; Translation regulation.
FT CHAIN 1..961
FT /note="Pumilio homolog 5"
FT /id="PRO_0000401387"
FT DOMAIN 608..948
FT /note="PUM-HD"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00318"
FT REPEAT 628..663
FT /note="Pumilio 1"
FT REPEAT 664..699
FT /note="Pumilio 2"
FT REPEAT 700..735
FT /note="Pumilio 3"
FT REPEAT 736..771
FT /note="Pumilio 4"
FT REPEAT 772..808
FT /note="Pumilio 5"
FT REPEAT 809..844
FT /note="Pumilio 6"
FT REPEAT 845..880
FT /note="Pumilio 7"
FT REPEAT 881..922
FT /note="Pumilio 8"
FT REGION 159..186
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 283..344
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 576..595
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOD_RES 193
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q9SS47"
FT VAR_SEQ 200..211
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|Ref.3"
FT /id="VSP_040176"
FT VAR_SEQ 637..654
FT /note="SVDQHGSRFIQQKLEHCS -> RQCFCSESIIFFNSEVVF (in isoform
FT 2)"
FT /evidence="ECO:0000303|Ref.3"
FT /id="VSP_040177"
FT VAR_SEQ 655..961
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|Ref.3"
FT /id="VSP_040178"
SQ SEQUENCE 961 AA; 106995 MW; 7BA2C7C657DC457B CRC64;
MTTTQSAMRM VEGDHIKNWQ ASSDSGIFGS LDMAVEDLGF LMKRNRLDSG DQTGKFPSRS
ESAPPSMEGS FAALRNLLKQ QEGSSSEVLS RAIENYDSEE EIRSDPAYVA YYLSNINLNP
RLPPPLISRE NQHLLRHFGD NNQSPTTSWD NMGIRSSLHS SRTALSTHRE EPEDEASSGE
QQSYASLAGR RKSIADMIQE DFPLTLSSVF KRPHSAGNRP IAQDIHAISS DTSSEHARRL
PESDINSVNL LRETDSLSSD AIASEDPFTT DLASQSFTNA QTERLNARQA SHEDNNLSVF
GASPPSSVAS RMRRNQEDQQ SQGRRMPPQY TPSSYQVQAS SPQQMSYPRI GGTQDMMQSL
PKIATGEVHS TFQSPHGLAP PPMYTSTAAY MTSLSPFYHQ NFQSSGMFVP QYNYGGYPPA
SGIVPQYMSG YPSHEATVPM PYDISSTSSG YNNPRLLPGV SSSGQNIPSL VDPFQLQYFQ
QAQVDAYAPP FQSSTDSFGQ KDQQAVGYMA NHEPLNSPLS PGYGLQSPRH MGNYFAVPPG
VRVMPQYPGS PLASPVMPSS PVGGMMSHFG RRSETRYHQQ GPSRNTGIYP GGWQGNRGGA
SSIVDDLKRH SFLDELKSPN ARKLELSDIA GRVVEFSVDQ HGSRFIQQKL EHCSDEEKAS
VFSEVLPQAS KLMTDVFGNY VIQKFIEHGT PAQREELVKQ LAGQMVSLSL QMYGCRVIQK
ALEVIDVDQK TELIRELDGN VLKCVRDQNG NHVIQKCIES MPAGRIGFVI AAFRGQVATL
STHPYGCRVI QRILEHCSDD EETHCIIDEI LESAFALAHD QYGNYVTQHV LERGKPDERR
QIIEKLTGNV VQMSQHKYAS NVVEKCLEHA DSTEREFLIE EIMGKSEEDN HLLAMMKDQF
ANYVVQKVLE ISKDQQREIL VQRMKIHLQS LRKYTYGKHI VARFEQLFGE ESEVSEEGTE
G
