LRP6B_ARATH
ID LRP6B_ARATH Reviewed; 545 AA.
AC O80567; C0Z3E5; F4IT26; Q945N2; Q9C5X1;
DT 16-APR-2014, integrated into UniProtKB/Swiss-Prot.
DT 01-JUN-2002, sequence version 2.
DT 25-MAY-2022, entry version 151.
DE RecName: Full=La-related protein 6B;
DE Short=AtLARP6b;
DE AltName: Full=VirF-interacting protein FIP1;
GN Name=LARP6B; Synonyms=FIP1; OrderedLocusNames=At2g43970; ORFNames=F6E13.10;
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 [MRNA] (ISOFORM 1).
RA Mayda E., Tzfira T., Citovsky V.;
RT "Arabidopsis thaliana VirF-interacting protein FIP1.";
RL Submitted (DEC-2000) to the EMBL/GenBank/DDBJ databases.
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10617197; DOI=10.1038/45471;
RA Lin X., Kaul S., Rounsley S.D., Shea T.P., Benito M.-I., Town C.D.,
RA Fujii C.Y., Mason T.M., Bowman C.L., Barnstead M.E., Feldblyum T.V.,
RA Buell C.R., Ketchum K.A., Lee J.J., Ronning C.M., Koo H.L., Moffat K.S.,
RA Cronin L.A., Shen M., Pai G., Van Aken S., Umayam L., Tallon L.J.,
RA Gill J.E., Adams M.D., Carrera A.J., Creasy T.H., Goodman H.M.,
RA Somerville C.R., Copenhaver G.P., Preuss D., Nierman W.C., White O.,
RA Eisen J.A., Salzberg S.L., Fraser C.M., Venter J.C.;
RT "Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana.";
RL Nature 402:761-768(1999).
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] (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 [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
RC STRAIN=cv. Columbia; TISSUE=Root;
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 [6]
RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RX PubMed=19376835; DOI=10.1104/pp.109.138677;
RA Reiland S., Messerli G., Baerenfaller K., Gerrits B., Endler A.,
RA Grossmann J., Gruissem W., Baginsky S.;
RT "Large-scale Arabidopsis phosphoproteome profiling reveals novel
RT chloroplast kinase substrates and phosphorylation networks.";
RL Plant Physiol. 150:889-903(2009).
RN [7]
RP GENE FAMILY, AND NOMENCLATURE.
RX PubMed=19299548; DOI=10.1261/rna.1478709;
RA Bousquet-Antonelli C., Deragon J.M.;
RT "A comprehensive analysis of the La-motif protein superfamily.";
RL RNA 15:750-764(2009).
CC -!- FUNCTION: Transcriptional regulator. {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=3;
CC Name=1;
CC IsoId=O80567-1; Sequence=Displayed;
CC Name=2;
CC IsoId=O80567-2; Sequence=VSP_054176;
CC Name=3;
CC IsoId=O80567-3; Sequence=VSP_054177;
CC -!- SEQUENCE CAUTION:
CC Sequence=AAL06505.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};
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DR EMBL; AF332565; AAK06847.1; -; mRNA.
DR EMBL; AC004005; AAC23405.2; -; Genomic_DNA.
DR EMBL; CP002685; AEC10356.1; -; Genomic_DNA.
DR EMBL; CP002685; AEC10357.1; -; Genomic_DNA.
DR EMBL; AF375410; AAK52994.1; -; mRNA.
DR EMBL; AF367277; AAK56266.1; -; mRNA.
DR EMBL; AF412052; AAL06505.1; ALT_INIT; mRNA.
DR EMBL; AY056238; AAL07087.1; -; mRNA.
DR EMBL; AY129474; AAM91060.1; -; mRNA.
DR EMBL; AK319109; BAH57224.1; -; mRNA.
DR PIR; T00677; T00677.
DR RefSeq; NP_566004.1; NM_129959.3. [O80567-1]
DR RefSeq; NP_850406.1; NM_180075.2. [O80567-3]
DR AlphaFoldDB; O80567; -.
DR SMR; O80567; -.
DR BioGRID; 4338; 4.
DR IntAct; O80567; 2.
DR STRING; 3702.AT2G43970.1; -.
DR iPTMnet; O80567; -.
DR PaxDb; O80567; -.
DR PRIDE; O80567; -.
DR ProteomicsDB; 238530; -. [O80567-1]
DR EnsemblPlants; AT2G43970.1; AT2G43970.1; AT2G43970. [O80567-1]
DR EnsemblPlants; AT2G43970.2; AT2G43970.2; AT2G43970. [O80567-3]
DR GeneID; 819002; -.
DR Gramene; AT2G43970.1; AT2G43970.1; AT2G43970. [O80567-1]
DR Gramene; AT2G43970.2; AT2G43970.2; AT2G43970. [O80567-3]
DR KEGG; ath:AT2G43970; -.
DR Araport; AT2G43970; -.
DR TAIR; locus:2051734; AT2G43970.
DR eggNOG; KOG1855; Eukaryota.
DR HOGENOM; CLU_033595_1_0_1; -.
DR InParanoid; O80567; -.
DR OMA; HRPYEYY; -.
DR OrthoDB; 1179659at2759; -.
DR PhylomeDB; O80567; -.
DR PRO; PR:O80567; -.
DR Proteomes; UP000006548; Chromosome 2.
DR ExpressionAtlas; O80567; baseline and differential.
DR Genevisible; O80567; AT.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0005844; C:polysome; IBA:GO_Central.
DR GO; GO:0003729; F:mRNA binding; IDA:TAIR.
DR GO; GO:0003723; F:RNA binding; IBA:GO_Central.
DR GO; GO:0006396; P:RNA processing; IEA:InterPro.
DR CDD; cd12288; RRM_La_like_plant; 1.
DR Gene3D; 1.10.10.10; -; 1.
DR Gene3D; 3.30.70.330; -; 1.
DR InterPro; IPR034878; La-rel_plant_RRM.
DR InterPro; IPR045180; La_dom_prot.
DR InterPro; IPR006630; La_HTH.
DR InterPro; IPR002344; Lupus_La.
DR InterPro; IPR012677; Nucleotide-bd_a/b_plait_sf.
DR InterPro; IPR035979; RBD_domain_sf.
DR InterPro; IPR036388; WH-like_DNA-bd_sf.
DR InterPro; IPR036390; WH_DNA-bd_sf.
DR PANTHER; PTHR22792; PTHR22792; 1.
DR Pfam; PF05383; La; 1.
DR PRINTS; PR00302; LUPUSLA.
DR SMART; SM00715; LA; 1.
DR SUPFAM; SSF46785; SSF46785; 1.
DR SUPFAM; SSF54928; SSF54928; 1.
DR PROSITE; PS50961; HTH_LA; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Nucleus; Reference proteome; RNA-binding;
KW Transcription; Transcription regulation.
FT CHAIN 1..545
FT /note="La-related protein 6B"
FT /id="PRO_0000428670"
FT DOMAIN 187..278
FT /note="HTH La-type RNA-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00332"
FT DOMAIN 285..383
FT /note="RRM"
FT REGION 1..76
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 105..187
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 382..545
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1..46
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 59..76
FT /note="Pro residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 109..128
FT /note="Basic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 153..173
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 382..413
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 464..482
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 483..498
FT /note="Basic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 499..515
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 11..61
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:19423640"
FT /id="VSP_054176"
FT VAR_SEQ 345..360
FT /note="Missing (in isoform 3)"
FT /evidence="ECO:0000305"
FT /id="VSP_054177"
FT CONFLICT 306
FT /note="S -> P (in Ref. 5; BAH57224)"
FT /evidence="ECO:0000305"
FT CONFLICT 415
FT /note="Q -> E (in Ref. 5; BAH57224)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 545 AA; 60589 MW; E1A933261FE1ED80 CRC64;
MADQQTLDSS TPPPTQSDDL SHSHSTSSTT SASSSSDPSL LRSLSLSRLN AGAPEFVPGR
TTPPLPQPPR MIIPPPPPHG MLHMYHHQPP FNTPVLGPVP IQPHLVPVQN HHPHHRFHQH
HHHNRHQNQQ YVPVRNHGEY QQRGGVGGEQ EPDLVSKKND RRDHSKRESK NDQVTETGAS
VSIDSKTGLP EDSIQKIVNQ VEYYFSDLNL ATTDHLMRFI CKDPEGYVPI HVVASFKKIK
AVINNNSQLA AVLQNSAKLF VSEDGKKVRR ISPITESAIE ELQSRIIVAE NLPEDHCYQN
LMKIFSTVGS VKNIRTCQPQ NNGSGAPPAA RSAAKSDGTL FSNKVHAFVE YEIVELAERA
VTELSEAGNW RSGLKVRLML KHQTKEPKQG QGRGRKGHDA DVEHEEDDAT TSEQQPIEKQ
SDDCSGEWDT HMQEQPIGED QGNEKAAGQR KGRNRGRGKG RGRGQPHQNQ NQNNNHSHNQ
NHNHNGRGNH HHHHHHQVGT QPSNNPMNNM EQPGMGKQQP PGPRMPDGTR GFSMGRGKPV
MVQAE
