RLF_ARATH
ID RLF_ARATH Reviewed; 211 AA.
AC Q9LXD1; Q9FXX6;
DT 26-NOV-2014, integrated into UniProtKB/Swiss-Prot.
DT 01-OCT-2000, sequence version 1.
DT 03-AUG-2022, entry version 150.
DE RecName: Full=Cytochrome b5 domain-containing protein RLF {ECO:0000305};
DE AltName: Full=Protein REDUCED LATERAL ROOT FORMATION {ECO:0000303|PubMed:20230485};
GN Name=RLF {ECO:0000303|PubMed:20230485};
GN OrderedLocusNames=At5g09680 {ECO:0000312|Araport:AT5G09680};
GN ORFNames=F17I14.130 {ECO:0000312|EMBL:CAB89362.1};
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=10470850; DOI=10.1093/dnares/6.3.183;
RA Kaneko T., Katoh T., Sato S., Nakamura Y., Asamizu E., Kotani H.,
RA Miyajima N., Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 5. IX. Sequence
RT features of the regions of 1,011,550 bp covered by seventeen P1 and TAC
RT clones.";
RL DNA Res. 6:183-195(1999).
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].
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].
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 (SEP-2004) to the EMBL/GenBank/DDBJ databases.
RN [6]
RP FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, AND DISRUPTION
RP PHENOTYPE.
RX PubMed=20230485; DOI=10.1111/j.1365-313x.2010.04199.x;
RA Ikeyama Y., Tasaka M., Fukaki H.;
RT "RLF, a cytochrome b(5)-like heme/steroid binding domain protein, controls
RT lateral root formation independently of ARF7/19-mediated auxin signaling in
RT Arabidopsis thaliana.";
RL Plant J. 62:865-875(2010).
CC -!- FUNCTION: Involved in the control of lateral root (LR) formation. Acts
CC a positive regulator of early cell divisions involved in LR initiation,
CC independently of ARF7 and ARF19-mediated auxin signaling.
CC {ECO:0000269|PubMed:20230485}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm, cytosol {ECO:0000269|PubMed:20230485}.
CC -!- TISSUE SPECIFICITY: Widely expressed. {ECO:0000269|PubMed:20230485}.
CC -!- DISRUPTION PHENOTYPE: Reduced number of emerged lateral roots and
CC lateral root primordia leading to small leaves and short stems in
CC flowering plants. {ECO:0000269|PubMed:20230485}.
CC -!- SIMILARITY: Belongs to the cytochrome b5 family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAB09523.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AB020752; BAB09523.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AL353994; CAB89362.1; -; Genomic_DNA.
DR EMBL; CP002688; AED91429.1; -; Genomic_DNA.
DR EMBL; CP002688; AED91430.1; -; Genomic_DNA.
DR EMBL; BT010404; AAQ62405.1; -; mRNA.
DR EMBL; AK175110; BAD42873.1; -; mRNA.
DR EMBL; AK175645; BAD43408.1; -; mRNA.
DR PIR; T49930; T49930.
DR RefSeq; NP_001031861.1; NM_001036784.1.
DR RefSeq; NP_196530.1; NM_121005.4.
DR AlphaFoldDB; Q9LXD1; -.
DR SMR; Q9LXD1; -.
DR BioGRID; 16105; 2.
DR IntAct; Q9LXD1; 2.
DR STRING; 3702.AT5G09680.2; -.
DR iPTMnet; Q9LXD1; -.
DR PaxDb; Q9LXD1; -.
DR PRIDE; Q9LXD1; -.
DR ProteomicsDB; 228168; -.
DR EnsemblPlants; AT5G09680.1; AT5G09680.1; AT5G09680.
DR EnsemblPlants; AT5G09680.2; AT5G09680.2; AT5G09680.
DR GeneID; 830827; -.
DR Gramene; AT5G09680.1; AT5G09680.1; AT5G09680.
DR Gramene; AT5G09680.2; AT5G09680.2; AT5G09680.
DR KEGG; ath:AT5G09680; -.
DR Araport; AT5G09680; -.
DR TAIR; locus:2144811; AT5G09680.
DR eggNOG; KOG0536; Eukaryota.
DR HOGENOM; CLU_046313_2_1_1; -.
DR InParanoid; Q9LXD1; -.
DR OMA; NEDSMWT; -.
DR PhylomeDB; Q9LXD1; -.
DR PRO; PR:Q9LXD1; -.
DR Proteomes; UP000006548; Chromosome 5.
DR ExpressionAtlas; Q9LXD1; baseline and differential.
DR GO; GO:0005829; C:cytosol; IDA:TAIR.
DR GO; GO:0020037; F:heme binding; IEA:InterPro.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0010311; P:lateral root formation; IMP:TAIR.
DR GO; GO:0040008; P:regulation of growth; IEA:UniProtKB-KW.
DR Gene3D; 3.10.120.10; -; 1.
DR InterPro; IPR001199; Cyt_B5-like_heme/steroid-bd.
DR InterPro; IPR036400; Cyt_B5-like_heme/steroid_sf.
DR InterPro; IPR018506; Cyt_B5_heme-BS.
DR Pfam; PF00173; Cyt-b5; 1.
DR SMART; SM01117; Cyt-b5; 1.
DR SUPFAM; SSF55856; SSF55856; 1.
DR PROSITE; PS00191; CYTOCHROME_B5_1; 1.
DR PROSITE; PS50255; CYTOCHROME_B5_2; 1.
PE 2: Evidence at transcript level;
KW Cytoplasm; Growth regulation; Heme; Iron; Metal-binding;
KW Reference proteome.
FT CHAIN 1..211
FT /note="Cytochrome b5 domain-containing protein RLF"
FT /id="PRO_0000430957"
FT DOMAIN 126..202
FT /note="Cytochrome b5 heme-binding"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00279"
FT REGION 1..23
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 42..90
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 58..87
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 161
FT /ligand="heme"
FT /ligand_id="ChEBI:CHEBI:30413"
FT /ligand_part="Fe"
FT /ligand_part_id="ChEBI:CHEBI:18248"
FT /note="axial binding residue"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00279"
FT BINDING 184
FT /ligand="heme"
FT /ligand_id="ChEBI:CHEBI:30413"
FT /ligand_part="Fe"
FT /ligand_part_id="ChEBI:CHEBI:18248"
FT /note="axial binding residue"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00279"
SQ SEQUENCE 211 AA; 23697 MW; 65E81B2E885DFFF2 CRC64;
MDTSRDDDFT FSKVSPPDSE VKDLASDVGS ITLKDGLDQQ KSNGLIWKDK SLPPKEETIG
SLSFTVTDSS SSKKQSNESS ETFKTPARKP ITRTKVPFEK GYSQMDWLKL TRTHPDLAGL
KGESNKRLIP MDEVKKHRTG DSMWTVLKGR VYNISPYMNF HPGGVDMLMK AVGRDGTLLF
NKYHAWVNVD ILLEKCLVGV LDDTKVKKQE P
