ALF4_ARATH
ID ALF4_ARATH Reviewed; 626 AA.
AC Q84VX3; F4JWD7; F4JWD8; Q0WTQ0; Q9FY62;
DT 15-MAR-2004, integrated into UniProtKB/Swiss-Prot.
DT 15-MAR-2004, sequence version 2.
DT 03-AUG-2022, entry version 115.
DE RecName: Full=Aberrant root formation protein 4;
GN Name=ALF4; OrderedLocusNames=At5g11030; ORFNames=T5K6.20;
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 (ISOFORMS 1 AND 2), ALTERNATIVE SPLICING, FUNCTION,
RP SUBCELLULAR LOCATION, AND TISSUE SPECIFICITY.
RX PubMed=14731255; DOI=10.1046/j.1365-313x.2003.01964.x;
RA DiDonato R.J., Arbuckle E., Buker S., Sheets J., Tobar J., Totong R.,
RA Grisafi P., Fink G.R., Celenza J.L.;
RT "Arabidopsis ALF4 encodes a nuclear-localized protein required for lateral
RT root formation.";
RL Plant J. 37:340-353(2004).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=11130714; DOI=10.1038/35048507;
RA Tabata S., Kaneko T., Nakamura Y., Kotani H., Kato T., Asamizu E.,
RA Miyajima N., Sasamoto S., Kimura T., Hosouchi T., Kawashima K., Kohara M.,
RA Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Naruo K.,
RA Okumura S., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M.,
RA Yasuda M., Sato S., de la Bastide M., Huang E., Spiegel L., Gnoj L.,
RA O'Shaughnessy A., Preston R., Habermann K., Murray J., Johnson D.,
RA Rohlfing T., Nelson J., Stoneking T., Pepin K., Spieth J., Sekhon M.,
RA Armstrong J., Becker M., Belter E., Cordum H., Cordes M., Courtney L.,
RA Courtney W., Dante M., Du H., Edwards J., Fryman J., Haakensen B.,
RA Lamar E., Latreille P., Leonard S., Meyer R., Mulvaney E., Ozersky P.,
RA Riley A., Strowmatt C., Wagner-McPherson C., Wollam A., Yoakum M., Bell M.,
RA Dedhia N., Parnell L., Shah R., Rodriguez M., Hoon See L., Vil D.,
RA Baker J., Kirchoff K., Toth K., King L., Bahret A., Miller B., Marra M.A.,
RA Martienssen R., McCombie W.R., Wilson R.K., Murphy G., Bancroft I.,
RA Volckaert G., Wambutt R., Duesterhoeft A., Stiekema W., Pohl T.,
RA Entian K.-D., Terryn N., Hartley N., Bent E., Johnson S., Langham S.-A.,
RA McCullagh B., Robben J., Grymonprez B., Zimmermann W., Ramsperger U.,
RA Wedler H., Balke K., Wedler E., Peters S., van Staveren M., Dirkse W.,
RA Mooijman P., Klein Lankhorst R., Weitzenegger T., Bothe G., Rose M.,
RA Hauf J., Berneiser S., Hempel S., Feldpausch M., Lamberth S.,
RA Villarroel R., Gielen J., Ardiles W., Bents O., Lemcke K., Kolesov G.,
RA Mayer K.F.X., Rudd S., Schoof H., Schueller C., Zaccaria P., Mewes H.-W.,
RA Bevan M., Fransz P.F.;
RT "Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana.";
RL Nature 408:823-826(2000).
RN [3]
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 [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 20-626 (ISOFORM 3).
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 25-626 (ISOFORM 3).
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).
CC -!- FUNCTION: Required for the initiation of lateral roots independent from
CC auxin signaling. May function in maintaining the pericycle in the
CC mitotically competent state needed for lateral root formation.
CC {ECO:0000269|PubMed:14731255}.
CC -!- INTERACTION:
CC Q84VX3; Q84MB2: TIFY8; NbExp=3; IntAct=EBI-4439253, EBI-4426557;
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:14731255}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=3;
CC Name=1;
CC IsoId=Q84VX3-1; Sequence=Displayed;
CC Name=2; Synonyms=ALF4deltaC, DeltaC;
CC IsoId=Q84VX3-2; Sequence=VSP_009626, VSP_009627;
CC Name=3;
CC IsoId=Q84VX3-3; Sequence=VSP_009628;
CC -!- TISSUE SPECIFICITY: Widely expressed. Expressed throughout the root
CC tip, stele and lateral primordia. Also expressed in the shoots.
CC {ECO:0000269|PubMed:14731255}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAE99498.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};
CC Sequence=CAC03451.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC ---------------------------------------------------------------------------
CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms
CC Distributed under the Creative Commons Attribution (CC BY 4.0) License
CC ---------------------------------------------------------------------------
DR EMBL; AL391222; CAC03451.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002688; AED91625.2; -; Genomic_DNA.
DR EMBL; CP002688; AED91626.2; -; Genomic_DNA.
DR EMBL; AK227498; BAE99498.1; ALT_INIT; mRNA.
DR EMBL; BT004637; AAO42883.1; -; mRNA.
DR PIR; T51792; T51792.
DR RefSeq; NP_001154704.2; NM_001161232.2. [Q84VX3-1]
DR RefSeq; NP_196664.4; NM_121141.5. [Q84VX3-3]
DR AlphaFoldDB; Q84VX3; -.
DR BioGRID; 16248; 7.
DR IntAct; Q84VX3; 5.
DR STRING; 3702.AT5G11030.2; -.
DR PaxDb; Q84VX3; -.
DR PRIDE; Q84VX3; -.
DR ProteomicsDB; 244971; -. [Q84VX3-1]
DR EnsemblPlants; AT5G11030.1; AT5G11030.1; AT5G11030. [Q84VX3-3]
DR EnsemblPlants; AT5G11030.2; AT5G11030.2; AT5G11030. [Q84VX3-1]
DR GeneID; 830970; -.
DR Gramene; AT5G11030.1; AT5G11030.1; AT5G11030. [Q84VX3-3]
DR Gramene; AT5G11030.2; AT5G11030.2; AT5G11030. [Q84VX3-1]
DR KEGG; ath:AT5G11030; -.
DR Araport; AT5G11030; -.
DR eggNOG; ENOG502SGEH; Eukaryota.
DR HOGENOM; CLU_030067_0_0_1; -.
DR InParanoid; Q84VX3; -.
DR OrthoDB; 458653at2759; -.
DR PhylomeDB; Q84VX3; -.
DR PRO; PR:Q84VX3; -.
DR Proteomes; UP000006548; Chromosome 5.
DR ExpressionAtlas; Q84VX3; baseline and differential.
DR Genevisible; Q84VX3; AT.
DR GO; GO:0005737; C:cytoplasm; IBA:GO_Central.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR GO; GO:0055105; F:ubiquitin-protein transferase inhibitor activity; IBA:GO_Central.
DR InterPro; IPR016024; ARM-type_fold.
DR InterPro; IPR019516; Glomulin/ALF4.
DR InterPro; IPR013877; YAP-bd/ALF4/Glomulin.
DR PANTHER; PTHR15430; PTHR15430; 1.
DR Pfam; PF08568; Kinetochor_Ybp2; 1.
DR SUPFAM; SSF48371; SSF48371; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Developmental protein; Nucleus; Reference proteome.
FT CHAIN 1..626
FT /note="Aberrant root formation protein 4"
FT /id="PRO_0000064550"
FT VAR_SEQ 246
FT /note="N -> V (in isoform 2)"
FT /evidence="ECO:0000305"
FT /id="VSP_009626"
FT VAR_SEQ 247..626
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000305"
FT /id="VSP_009627"
FT VAR_SEQ 426..449
FT /note="Missing (in isoform 3)"
FT /evidence="ECO:0000303|PubMed:14593172, ECO:0000303|Ref.4"
FT /id="VSP_009628"
SQ SEQUENCE 626 AA; 69189 MW; F331BEC06AF130BB CRC64;
MVKFAIINTL TVNETWAKLK SFGVMESSIE GSSESTTVTT SPSRRVRELL ALCFSSVEEA
GGFQDFESFV TELVSCLDSL YENVALDANN ELENDVIEEV LDEILKVLSS PQMDQDVIDA
LSFHLPKVTS KFADISSRCL QLVEEIVDRF VEACNPRDML SILCEALDAA RCYHSASTCS
TPLLHGLSKV FILIQRRHYE QLKVAVPIVL NVLKDISLET DVQVEDLFDK ALGIASSIRD
VSSKLNNEEE AKVRCLLCLY VIQITAIISV SIRDKAASCI PLVIQLEPFL TSCGLTHLGL
ITGNDTEKLM STVAGDDDEF ITSFPDISLG ASLLFICAKI SHEVAEAANA VLGSVVDELQ
NNPVKRWQAY GMLKYILSSG DLLWEFKRHA IEFLLDITKG VTSSQCNDEQ IDCSDYTPGI
YATLQAVTLL IMYAPDADLR KKTFEALKRV LSDIPAPHRF DVLRALVTNS RSPSMTAILL
GLVKDSMSKS SLQDTDCAAV DTHVIELVEL VLRPPQGGPP LLPDQSDAIL AALNLYRFAL
LFESRECEAG KERSKVGSDI LSKKNLEKAY KEWLLPLRTL VSCSIAENLK EDHGQESSLD
DVGLLNPIEL VLYRCIELVE EKLKSH
