PUM23_ARATH
ID PUM23_ARATH Reviewed; 753 AA.
AC Q9C552; Q3E7J5; Q3ECD8;
DT 30-NOV-2010, integrated into UniProtKB/Swiss-Prot.
DT 01-JUN-2001, sequence version 1.
DT 25-MAY-2022, entry version 126.
DE RecName: Full=Pumilio homolog 23;
DE Short=APUM-23;
DE Short=AtPUM23;
GN Name=APUM23; OrderedLocusNames=At1g72320; ORFNames=T10D10.21, T9N14.7;
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 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] (ISOFORM 2).
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.
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, AND SUBCELLULAR LOCATION.
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 {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Nucleus, nucleolus {ECO:0000269|PubMed:20214804}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q9C552-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q9C552-2; Sequence=VSP_040181;
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 -!- MISCELLANEOUS: [Isoform 2]: May be due to a competing acceptor splice
CC site. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BX815356; Type=Miscellaneous discrepancy; Note=Sequencing errors.; Evidence={ECO:0000305};
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DR EMBL; AC016529; AAG52582.1; -; Genomic_DNA.
DR EMBL; AC067754; AAG51785.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE35302.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE35303.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE35304.1; -; Genomic_DNA.
DR EMBL; CP002684; ANM59447.1; -; Genomic_DNA.
DR EMBL; AY035041; AAK59546.1; -; mRNA.
DR EMBL; AY051073; AAK93750.1; -; mRNA.
DR EMBL; BX815356; -; NOT_ANNOTATED_CDS; mRNA.
DR PIR; A96747; A96747.
DR RefSeq; NP_001321803.1; NM_001334523.1. [Q9C552-1]
DR RefSeq; NP_177376.1; NM_105891.3. [Q9C552-1]
DR RefSeq; NP_849878.2; NM_179547.5. [Q9C552-2]
DR RefSeq; NP_974130.1; NM_202401.1. [Q9C552-2]
DR PDB; 5WZG; X-ray; 2.55 A; A=85-655.
DR PDB; 5WZH; X-ray; 2.51 A; A=85-655.
DR PDB; 5WZI; X-ray; 2.75 A; A=85-655.
DR PDB; 5WZJ; X-ray; 2.10 A; A=85-655.
DR PDB; 5WZK; X-ray; 2.80 A; A=85-655.
DR PDBsum; 5WZG; -.
DR PDBsum; 5WZH; -.
DR PDBsum; 5WZI; -.
DR PDBsum; 5WZJ; -.
DR PDBsum; 5WZK; -.
DR AlphaFoldDB; Q9C552; -.
DR SMR; Q9C552; -.
DR STRING; 3702.AT1G72320.1; -.
DR PaxDb; Q9C552; -.
DR PRIDE; Q9C552; -.
DR ProteomicsDB; 226114; -. [Q9C552-1]
DR EnsemblPlants; AT1G72320.1; AT1G72320.1; AT1G72320. [Q9C552-1]
DR EnsemblPlants; AT1G72320.2; AT1G72320.2; AT1G72320. [Q9C552-2]
DR EnsemblPlants; AT1G72320.3; AT1G72320.3; AT1G72320. [Q9C552-2]
DR EnsemblPlants; AT1G72320.4; AT1G72320.4; AT1G72320. [Q9C552-1]
DR GeneID; 843564; -.
DR Gramene; AT1G72320.1; AT1G72320.1; AT1G72320. [Q9C552-1]
DR Gramene; AT1G72320.2; AT1G72320.2; AT1G72320. [Q9C552-2]
DR Gramene; AT1G72320.3; AT1G72320.3; AT1G72320. [Q9C552-2]
DR Gramene; AT1G72320.4; AT1G72320.4; AT1G72320. [Q9C552-1]
DR KEGG; ath:AT1G72320; -.
DR Araport; AT1G72320; -.
DR TAIR; locus:2193982; AT1G72320.
DR eggNOG; KOG2188; Eukaryota.
DR HOGENOM; CLU_010876_0_0_1; -.
DR InParanoid; Q9C552; -.
DR OrthoDB; 238378at2759; -.
DR PhylomeDB; Q9C552; -.
DR PRO; PR:Q9C552; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q9C552; baseline and differential.
DR Genevisible; Q9C552; AT.
DR GO; GO:0030686; C:90S preribosome; IBA:GO_Central.
DR GO; GO:0005730; C:nucleolus; IDA:TAIR.
DR GO; GO:0030688; C:preribosome, small subunit precursor; IBA:GO_Central.
DR GO; GO:0003723; F:RNA binding; IBA:GO_Central.
DR GO; GO:0010252; P:auxin homeostasis; IMP:TAIR.
DR GO; GO:0000480; P:endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); IBA:GO_Central.
DR GO; GO:0000447; P:endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); IBA:GO_Central.
DR GO; GO:0000472; P:endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA); IBA:GO_Central.
DR GO; GO:0006417; P:regulation of translation; IEA:UniProtKB-KW.
DR GO; GO:0009749; P:response to glucose; IEP:TAIR.
DR GO; GO:0009744; P:response to sucrose; IEP:TAIR.
DR GO; GO:0000056; P:ribosomal small subunit export from nucleus; IBA:GO_Central.
DR Gene3D; 1.25.10.10; -; 2.
DR InterPro; IPR011989; ARM-like.
DR InterPro; IPR016024; ARM-type_fold.
DR InterPro; IPR040000; NOP9.
DR InterPro; IPR001313; Pumilio_RNA-bd_rpt.
DR PANTHER; PTHR13102; PTHR13102; 1.
DR Pfam; PF00806; PUF; 3.
DR SMART; SM00025; Pumilio; 6.
DR SUPFAM; SSF48371; SSF48371; 2.
DR PROSITE; PS50302; PUM; 8.
PE 1: Evidence at protein level;
KW 3D-structure; Alternative splicing; Nucleus; Reference proteome; Repeat;
KW RNA-binding; Translation regulation.
FT CHAIN 1..753
FT /note="Pumilio homolog 23"
FT /id="PRO_0000401405"
FT REPEAT 123..158
FT /note="Pumilio 1"
FT REPEAT 159..198
FT /note="Pumilio 2"
FT REPEAT 206..244
FT /note="Pumilio 3"
FT REPEAT 284..325
FT /note="Pumilio 4"
FT DOMAIN 322..675
FT /note="PUM-HD"
FT REPEAT 345..380
FT /note="Pumilio 5"
FT REPEAT 381..418
FT /note="Pumilio 6"
FT REPEAT 526..563
FT /note="Pumilio 7"
FT REPEAT 564..599
FT /note="Pumilio 8"
FT REGION 1..84
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 677..753
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 11..38
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 677..729
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 1..22
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:14993207"
FT /id="VSP_040181"
FT HELIX 90..104
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 110..122
FT /evidence="ECO:0007829|PDB:5WZJ"
FT TURN 123..126
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 128..132
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 137..147
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 150..160
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 161..163
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 164..168
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 173..185
FT /evidence="ECO:0007829|PDB:5WZJ"
FT TURN 186..189
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 191..193
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 194..210
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 213..217
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 219..233
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 240..243
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 248..254
FT /evidence="ECO:0007829|PDB:5WZJ"
FT STRAND 270..272
FT /evidence="ECO:0007829|PDB:5WZK"
FT HELIX 275..286
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 290..296
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 300..312
FT /evidence="ECO:0007829|PDB:5WZJ"
FT TURN 313..315
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 317..327
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 344..352
FT /evidence="ECO:0007829|PDB:5WZJ"
FT TURN 353..355
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 357..369
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 372..381
FT /evidence="ECO:0007829|PDB:5WZJ"
FT TURN 382..385
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 387..391
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 396..405
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 410..420
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 421..423
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 424..429
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 433..446
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 450..461
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 466..470
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 471..476
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 478..483
FT /evidence="ECO:0007829|PDB:5WZJ"
FT TURN 487..489
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 500..509
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 514..516
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 518..526
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 529..536
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 541..550
FT /evidence="ECO:0007829|PDB:5WZJ"
FT STRAND 551..553
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 555..563
FT /evidence="ECO:0007829|PDB:5WZJ"
FT TURN 564..567
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 569..574
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 576..587
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 591..603
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 605..610
FT /evidence="ECO:0007829|PDB:5WZJ"
FT STRAND 611..613
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 614..620
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 623..628
FT /evidence="ECO:0007829|PDB:5WZJ"
FT HELIX 630..638
FT /evidence="ECO:0007829|PDB:5WZJ"
SQ SEQUENCE 753 AA; 84828 MW; 300CC905280C29CA CRC64;
MVSVGSKSLP SRRHRTIEED SLMGERGKSS NNHSERNKGM RRKDHKGNRG FDVDSSKKNQ
SGGAPNVKPA SKKHSEFEHQ NQFVRKEIDP ETSKYFSEIA NLFDSNEVEL EERSVICGNA
LEETRGREYE IATDYIISHV LQTLLEGCEL DQLCSFIRNS ASVFPAIAMD RSGSHVAESA
LKSLATHLEN PDAYSVIEEA LHSICKVIVD NPLDMMCNCY GSHVLRRLLC LCKGVSLDSP
ELYGAKSSKA LAKRLNLKMS QLDDNNLEIP HQGFPGMLTY LLSGLLSCSR EDMKYLQVDQ
YSSLVLQTAL RLMLKQDEQL LEIIPLILRC NSTNKKVEGF HIETNVAKEI LESMKDNSFS
HLVEVILEVA PESLYNEMFN KVFKNSLFEL SVDRCANFVI QALISHARDQ EQMGIMWEEL
APRFKDLLEQ GKSGVVASLI AVSQRLQSHE NKCCEALVGA VCSTNESRIS ILPRLLFLDY
YFGCRDKSTW EWAPGAKMHV MGCLILQGIF KFSSDHIQPY ITSLTSMKAE YITETAKDSS
GARVIEAFLA SDAATKQKRR LIIKLRGHFG ELSLHTSGSF TVEKCFDACN LTLREAIASE
LLDVKVDLSK TKQGPYLLRK LDIDGYASRP DQWKSRQEAK QSTYNEFCSA FGSNKSNFPK
NTFVSDASED AAQEIEVKNT RKEIDHHPTS GFKRHREKHA KDKDEPFAGE KRSKQKKNKT
SEATDKPKLA GSKRPFLSGE MTGKNRHSNK MRI
