APL_ARATH
ID APL_ARATH Reviewed; 358 AA.
AC Q9SAK5; B9DFC9; Q94AW3;
DT 24-MAR-2009, integrated into UniProtKB/Swiss-Prot.
DT 24-MAR-2009, sequence version 2.
DT 03-AUG-2022, entry version 141.
DE RecName: Full=Myb family transcription factor APL {ECO:0000303|PubMed:14614507};
DE Short=AtAPL {ECO:0000303|PubMed:14614507};
DE AltName: Full=Protein ALTERED PHLOEM DEVELOPMENT {ECO:0000303|PubMed:14614507};
DE AltName: Full=Protein FE {ECO:0000303|PubMed:26239308};
DE AltName: Full=Protein PHOSPHATE STARVATION RESPONSE 2 {ECO:0000303|PubMed:15592750};
DE Short=AtPHR2 {ECO:0000303|PubMed:15592750};
DE AltName: Full=Protein PHR1-LIKE 14 {ECO:0000305};
DE AltName: Full=Protein WOODY;
GN Name=APL {ECO:0000303|PubMed:14614507};
GN Synonyms=FE {ECO:0000303|PubMed:26239308}, PHL14 {ECO:0000305},
GN PHR2 {ECO:0000303|PubMed:15592750}, WDY; OrderedLocusNames=At1g79430;
GN ORFNames=T8K14.15;
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 2).
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=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 [5]
RP GENE FAMILY.
RX PubMed=11511543; DOI=10.1101/gad.204401;
RA Rubio V., Linhares F., Solano R., Martin A.C., Iglesias J., Leyva A.,
RA Paz-Ares J.;
RT "A conserved MYB transcription factor involved in phosphate starvation
RT signaling both in vascular plants and in unicellular algae.";
RL Genes Dev. 15:2122-2133(2001).
RN [6]
RP FUNCTION, TISSUE SPECIFICITY, SUBCELLULAR LOCATION, DEVELOPMENTAL STAGE,
RP AND DISRUPTION PHENOTYPE.
RX PubMed=14614507; DOI=10.1038/nature02100;
RA Bonke M., Thitamadee S., Maehoenen A.P., Hauser M.-T., Helariutta Y.;
RT "APL regulates vascular tissue identity in Arabidopsis.";
RL Nature 426:181-186(2003).
RN [7]
RP INDUCTION BY PHOSPHATE.
RX PubMed=15592750; DOI=10.1007/s00425-004-1305-7;
RA Todd C.D., Zeng P., Huete A.M., Hoyos M.E., Polacco J.C.;
RT "Transcripts of MYB-like genes respond to phosphorous and nitrogen
RT deprivation in Arabidopsis.";
RL Planta 219:1003-1009(2004).
RN [8]
RP TISSUE SPECIFICITY.
RX PubMed=15923329; DOI=10.1104/pp.105.060202;
RA Zhao C., Craig J.C., Petzold H.E., Dickerman A.W., Beers E.P.;
RT "The xylem and phloem transcriptomes from secondary tissues of the
RT Arabidopsis root-hypocotyl.";
RL Plant Physiol. 138:803-818(2005).
RN [9]
RP FUNCTION, AND DEVELOPMENTAL STAGE.
RX PubMed=18523061; DOI=10.1105/tpc.107.056069;
RA Truernit E., Bauby H., Dubreucq B., Grandjean O., Runions J.,
RA Barthelemy J., Palauqui J.-C.;
RT "High-resolution whole-mount imaging of three-dimensional tissue
RT organization and gene expression enables the study of Phloem development
RT and structure in Arabidopsis.";
RL Plant Cell 20:1494-1503(2008).
RN [10]
RP FUNCTION.
RX PubMed=25081480; DOI=10.1126/science.1253736;
RA Furuta K.M., Yadav S.R., Lehesranta S., Belevich I., Miyashima S.,
RA Heo J.O., Vaten A., Lindgren O., De Rybel B., Van Isterdael G.,
RA Somervuo P., Lichtenberger R., Rocha R., Thitamadee S., Taehtiharju S.,
RA Auvinen P., Beeckman T., Jokitalo E., Helariutta Y.;
RT "Plant development. Arabidopsis NAC45/86 direct sieve element morphogenesis
RT culminating in enucleation.";
RL Science 345:933-937(2014).
RN [11]
RP FUNCTION, MUTAGENESIS OF GLY-89, AND TISSUE SPECIFICITY.
RX PubMed=26239308; DOI=10.1111/tpj.12951;
RA Abe M., Kaya H., Watanabe-Taneda A., Shibuta M., Yamaguchi A., Sakamoto T.,
RA Kurata T., Ausin I., Araki T., Alonso-Blanco C.;
RT "FE, a phloem-specific Myb-related protein, promotes flowering through
RT transcriptional activation of FLOWERING LOCUS T and FLOWERING LOCUS T
RT INTERACTING PROTEIN 1.";
RL Plant J. 83:1059-1068(2015).
CC -!- FUNCTION: Transcription factor required for phloem identity. Has a dual
CC role both in promoting phloem differentiation and in repressing xylem
CC differentiation during vascular development. Regulates the expression
CC of the transcription factor NAC045 (AC A4VCM0). May activate the
CC transcription of specific genes involved in phosphate uptake or
CC assimilation (PubMed:15592750). Promotes flowering through
CC transcriptional activation of both FT and its transport machinery
CC component, FTIP1 (PubMed:26239308). {ECO:0000269|PubMed:14614507,
CC ECO:0000269|PubMed:18523061, ECO:0000269|PubMed:25081480,
CC ECO:0000269|PubMed:26239308, ECO:0000305|PubMed:15592750}.
CC -!- INTERACTION:
CC Q9SAK5; Q9FL03: SCL4; NbExp=3; IntAct=EBI-4437350, EBI-1238466;
CC Q9SAK5; O81316: SCL6; NbExp=3; IntAct=EBI-4437350, EBI-4428591;
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:14614507}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q9SAK5-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q9SAK5-2; Sequence=VSP_036592;
CC -!- TISSUE SPECIFICITY: Expressed in shoots and roots, specifically in the
CC developing protophloem sieve elements (PubMed:14614507). Detected in
CC phloem and/or cambium (PubMed:15923329). Expressed in the phloem
CC tissues of various organs, including leaves and cotyledons, during
CC vegetative growth (PubMed:26239308). {ECO:0000269|PubMed:14614507,
CC ECO:0000269|PubMed:15923329, ECO:0000269|PubMed:26239308}.
CC -!- DEVELOPMENTAL STAGE: Specifically expressed in the developing
CC protophloem sieve elements soon after the phloem-specific cell
CC divisions have taken place. Also found in the companion cells and
CC metaphloem sieve elements. May not be necessary for the initial steps
CC of protophloem differentiation. {ECO:0000269|PubMed:14614507,
CC ECO:0000269|PubMed:18523061}.
CC -!- INDUCTION: Up-regulated by phosphate deficiency.
CC {ECO:0000269|PubMed:15592750}.
CC -!- DISRUPTION PHENOTYPE: Differentiation of tracheary-like elements of
CC xyleme at the site of the phloem pole leading to seedling lethality.
CC {ECO:0000269|PubMed:14614507}.
CC -!- MISCELLANEOUS: [Isoform 2]: May be due to an intron retention.
CC {ECO:0000305}.
CC -!- SIMILARITY: Belongs to the MYB-CC family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAD30233.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AC007202; AAD30233.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002684; AEE36241.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE36242.1; -; Genomic_DNA.
DR EMBL; AY045662; AAK74020.1; -; mRNA.
DR EMBL; AY143841; AAN28780.1; -; mRNA.
DR EMBL; AK316719; BAH19446.1; -; mRNA.
DR PIR; D96825; D96825.
DR RefSeq; NP_565209.1; NM_106591.2. [Q9SAK5-2]
DR RefSeq; NP_849905.1; NM_179574.3. [Q9SAK5-1]
DR AlphaFoldDB; Q9SAK5; -.
DR SMR; Q9SAK5; -.
DR BioGRID; 29500; 11.
DR IntAct; Q9SAK5; 15.
DR STRING; 3702.AT1G79430.2; -.
DR iPTMnet; Q9SAK5; -.
DR PaxDb; Q9SAK5; -.
DR PRIDE; Q9SAK5; -.
DR ProteomicsDB; 240881; -. [Q9SAK5-1]
DR EnsemblPlants; AT1G79430.1; AT1G79430.1; AT1G79430. [Q9SAK5-2]
DR EnsemblPlants; AT1G79430.2; AT1G79430.2; AT1G79430. [Q9SAK5-1]
DR GeneID; 844281; -.
DR Gramene; AT1G79430.1; AT1G79430.1; AT1G79430. [Q9SAK5-2]
DR Gramene; AT1G79430.2; AT1G79430.2; AT1G79430. [Q9SAK5-1]
DR KEGG; ath:AT1G79430; -.
DR Araport; AT1G79430; -.
DR TAIR; locus:2206415; AT1G79430.
DR eggNOG; ENOG502QQUN; Eukaryota.
DR HOGENOM; CLU_040475_0_0_1; -.
DR InParanoid; Q9SAK5; -.
DR OMA; MERPMEA; -.
DR OrthoDB; 786309at2759; -.
DR PhylomeDB; Q9SAK5; -.
DR PRO; PR:Q9SAK5; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q9SAK5; baseline and differential.
DR Genevisible; Q9SAK5; AT.
DR GO; GO:0005634; C:nucleus; IDA:TAIR.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0003700; F:DNA-binding transcription factor activity; ISS:TAIR.
DR GO; GO:0009908; P:flower development; IEA:UniProtKB-KW.
DR GO; GO:0010088; P:phloem development; IMP:TAIR.
DR GO; GO:0045893; P:positive regulation of transcription, DNA-templated; IEP:TAIR.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; TAS:TAIR.
DR GO; GO:0010089; P:xylem development; IMP:TAIR.
DR InterPro; IPR009057; Homeobox-like_sf.
DR InterPro; IPR025756; Myb_CC_LHEQLE.
DR InterPro; IPR017930; Myb_dom.
DR InterPro; IPR006447; Myb_dom_plants.
DR InterPro; IPR044848; PHR1-like.
DR PANTHER; PTHR31499; PTHR31499; 1.
DR Pfam; PF14379; Myb_CC_LHEQLE; 1.
DR Pfam; PF00249; Myb_DNA-binding; 1.
DR SUPFAM; SSF46689; SSF46689; 1.
DR TIGRFAMs; TIGR01557; myb_SHAQKYF; 1.
DR PROSITE; PS51294; HTH_MYB; 1.
PE 1: Evidence at protein level;
KW Activator; Alternative splicing; Coiled coil; DNA-binding; Flowering;
KW Nucleus; Reference proteome; Transcription; Transcription regulation.
FT CHAIN 1..358
FT /note="Myb family transcription factor APL"
FT /id="PRO_0000366959"
FT DOMAIN 31..91
FT /note="HTH myb-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00625"
FT DNA_BIND 62..87
FT /note="H-T-H motif"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00625"
FT REGION 313..358
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COILED 125..145
FT /evidence="ECO:0000255"
FT MOTIF 138..143
FT /note="LHEQLE"
FT /evidence="ECO:0000305"
FT VAR_SEQ 1..65
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:14593172,
FT ECO:0000303|PubMed:19423640"
FT /id="VSP_036592"
FT MUTAGEN 89
FT /note="G->E: In fe-1; severe delay in flowering time under
FT LD conditions, but no effect on flowering time under SD
FT conditions."
FT /evidence="ECO:0000269|PubMed:26239308"
SQ SEQUENCE 358 AA; 39598 MW; F92EABC974F8BF9F CRC64;
MFHAKKPSSM NGSYENRAMC VQGDSGLVLT TDPKPRLRWT VELHERFVDA VAQLGGPDKA
TPKTIMRVMG VKGLTLYHLK SHLQKFRLGK QPHKEYGDHS TKEGSRASAM DIQRNVASSS
GMMSRNMNEM QMEVQRRLHE QLEVQRHLQL RIEAQGKYMQ SILERACQTL AGENMAAATA
AAAVGGGYKG NLGSSSLSAA VGPPPHPLSF PPFQDLNIYG NTTDQVLDHH NFHHQNIENH
FTGNNAADTN IYLGKKRPNP NFGNDVRKGL LMWSDQDHDL SANQSIDDEH RIQIQMATHV
STDLDSLSEI YERKSGLSGD EGNNGGKLLE RPSPRRSPLS PMMNPNGGLI QGRNSPFG
