RFAC3_ARATH
ID RFAC3_ARATH Reviewed; 314 AA.
AC Q948R9; A0A178V657; Q8LE34; Q9LSN0;
DT 03-AUG-2022, integrated into UniProtKB/Swiss-Prot.
DT 01-DEC-2001, sequence version 1.
DT 03-AUG-2022, entry version 147.
DE RecName: Full=Protein REGULATOR OF FATTY ACID COMPOSITION 3, chloroplastic {ECO:0000303|PubMed:12581310, ECO:0000303|Ref.6};
DE AltName: Full=30S ribosomal protein S6 {ECO:0000255|HAMAP-Rule:MF_00360};
DE Flags: Precursor;
GN Name=RFC3 {ECO:0000303|PubMed:12581310, ECO:0000303|Ref.6};
GN Synonyms=rpsF {ECO:0000255|HAMAP-Rule:MF_00360};
GN OrderedLocusNames=At3g17170 {ECO:0000312|Araport:AT3G17170};
GN ORFNames=K14A17.25 {ECO:0000312|EMBL:BAA94995.1};
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 [MRNA], FUNCTION, DISRUPTION PHENOTYPE, TISSUE
RP SPECIFICITY, AND SUBCELLULAR LOCATION.
RC STRAIN=cv. Columbia; TISSUE=Leaf;
RX PubMed=12581310; DOI=10.1046/j.1365-313x.2003.01651.x;
RA Horiguchi G., Kodama H., Iba K.;
RT "Mutations in a gene for plastid ribosomal protein S6-like protein reveal a
RT novel developmental process required for the correct organization of
RT lateral root meristem in Arabidopsis.";
RL Plant J. 33:521-529(2003).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10819329; DOI=10.1093/dnares/7.2.131;
RA Sato S., Nakamura Y., Kaneko T., Katoh T., Asamizu E., Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 3. I. Sequence
RT features of the regions of 4,504,864 bp covered by sixty P1 and TAC
RT clones.";
RL DNA Res. 7:131-135(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].
RA Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B.,
RA Feldmann K.A.;
RT "Full-length cDNA from Arabidopsis thaliana.";
RL Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases.
RN [6]
RP FUNCTION, AND DISRUPTION PHENOTYPE.
RC STRAIN=cv. Columbia, and cv. Landsberg erecta;
RX DOI=10.1016/S0168-9452(01)00523-4;
RA Horiguchi G., Kodama H., Iba K.;
RT "Characterization of Arabidopsis mutants that are associated with altered
RT C18 unsaturated fatty acid metabolism.";
RL Plant Sci. 161:1117-1123(2001).
RN [7]
RP FUNCTION, DISRUPTION PHENOTYPE, SUBCELLULAR LOCATION, AND DEVELOPMENTAL
RP STAGE.
RC STRAIN=cv. Columbia, and cv. Landsberg erecta;
RX PubMed=29367414; DOI=10.1242/bio.028175;
RA Nakata M.T., Sato M., Wakazaki M., Sato N., Kojima K., Sekine A.,
RA Nakamura S., Shikanai T., Toyooka K., Tsukaya H., Horiguchi G.;
RT "Plastid translation is essential for lateral root stem cell patterning in
RT Arabidopsis thaliana.";
RL Biol. Open 7:bio028175-bio028175(2018).
RN [8]
RP FUNCTION, DISRUPTION PHENOTYPE, INTERACTION WITH CFM3B/SPRT2, AND
RP SUBCELLULAR LOCATION.
RC STRAIN=cv. Columbia, and cv. Landsberg erecta;
RX PubMed=32143506; DOI=10.3390/plants9030328;
RA Nagashima Y., Ohshiro K., Iwase A., Nakata M.T., Maekawa S., Horiguchi G.;
RT "The bRPS6-family protein RFC3 prevents interference by the splicing factor
RT CFM3b during plastid rRNA biogenesis in Arabidopsis thaliana.";
RL Plants (Basel) 9:328-328(2020).
CC -!- FUNCTION: Binds together with S18 to 16S ribosomal RNA (By similarity).
CC Prevents non-specific action of the splicing factor CFM3b during
CC plastid rRNA biogenesis to improve the accuracy of plastid rRNA
CC processing (PubMed:32143506). Required for plastid functions such as
CC photosynthesis, intracellular distribution, plastid rRNAs biosynthesis
CC and plastid gene expression in roots (PubMed:29367414,
CC PubMed:32143506). Involved in a sucrose-conditional process important
CC for the organization of root lateral and apical meristems (e.g.
CC establishment of RAM from pericycle and symplasmic connectivity), and
CC subsequent primary and lateral roots development (PubMed:12581310,
CC Ref.6, PubMed:29367414). Modulates C18 unsaturated fatty acid
CC metabolism (Ref.6). {ECO:0000255|HAMAP-Rule:MF_00360,
CC ECO:0000269|PubMed:12581310, ECO:0000269|PubMed:29367414,
CC ECO:0000269|PubMed:32143506, ECO:0000269|Ref.6}.
CC -!- SUBUNIT: Interacts with CFM3B/SPRT2 in plastids.
CC {ECO:0000269|PubMed:32143506}.
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast {ECO:0000255|HAMAP-
CC Rule:MF_00360, ECO:0000269|PubMed:12581310,
CC ECO:0000269|PubMed:29367414}. Plastid {ECO:0000269|PubMed:29367414,
CC ECO:0000269|PubMed:32143506}. Note=Present in roots plastids and in
CC leaves chloroplasts. {ECO:0000269|PubMed:29367414,
CC ECO:0000269|PubMed:32143506}.
CC -!- TISSUE SPECIFICITY: Expressed ubiquitously in roots, leaves, stems,
CC flower buds, flowers and siliques. {ECO:0000269|PubMed:12581310}.
CC -!- DEVELOPMENTAL STAGE: In underground tissues, observed in root tips and
CC differentiated portions of primary roots, as well as in lateral root
CC primordia. {ECO:0000269|PubMed:29367414}.
CC -!- DISRUPTION PHENOTYPE: Decreased leaf photosynthetic activity, reduced
CC accumulation of plastid rRNAs (both mature and immature) in roots and
CC altered root plastid gene expression leading to small plants with pale-
CC green leaves (PubMed:29367414, PubMed:32143506). Abnormal intracellular
CC distribution of plastids (PubMed:29367414). Altered fatty acid
CC composition of membrane lipids leading to an increased oleic acid
CC (18:1) level at the expense of alpha-linolenic acid (18:3) level among
CC total fatty acids, especially in root tissues (Ref.6). Aberrant lateral
CC root phenotype that lack stem cells and associated with disrupted stem
CC cell patterning and changes in expression of several root stem cell
CC regulators (Ref.6, PubMed:12581310, PubMed:29367414, PubMed:32143506).
CC Exhibits a sucrose-conditional defect in the patterning of distal
CC elements in the primary and lateral roots meristems (PubMed:12581310,
CC PubMed:29367414). Abnormal symplasmic connectivity between primary root
CC and lateral root primordia (PubMed:29367414). The double mutant rfc3-2
CC sprt2-1 is rescued for primary and lateral root development as well as
CC for plastid rRNA level compared to the single mutant rfc3-2
CC (PubMed:32143506). {ECO:0000269|PubMed:12581310,
CC ECO:0000269|PubMed:29367414, ECO:0000269|PubMed:32143506,
CC ECO:0000269|Ref.6}.
CC -!- SIMILARITY: Belongs to the bacterial ribosomal protein bS6 family.
CC {ECO:0000255|HAMAP-Rule:MF_00360}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAA94995.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AB057424; BAB67768.1; -; mRNA.
DR EMBL; AB026636; BAA94995.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002686; AEE75914.1; -; Genomic_DNA.
DR EMBL; AY074580; AAL67119.1; -; mRNA.
DR EMBL; AY101540; AAM26661.1; -; mRNA.
DR EMBL; AY085649; AAM62870.1; -; mRNA.
DR RefSeq; NP_566568.1; NM_112593.3.
DR SMR; Q948R9; -.
DR STRING; 3702.AT3G17170.1; -.
DR PRIDE; Q948R9; -.
DR ProteomicsDB; 175447; -.
DR EnsemblPlants; AT3G17170.1; AT3G17170.1; AT3G17170.
DR GeneID; 820974; -.
DR Gramene; AT3G17170.1; AT3G17170.1; AT3G17170.
DR KEGG; ath:AT3G17170; -.
DR Araport; AT3G17170; -.
DR TAIR; locus:2086112; AT3G17170.
DR eggNOG; ENOG502QU7T; Eukaryota.
DR HOGENOM; CLU_055734_0_0_1; -.
DR OMA; NIQMESD; -.
DR OrthoDB; 1184566at2759; -.
DR Proteomes; UP000006548; Chromosome 3.
DR ExpressionAtlas; Q948R9; baseline and differential.
DR GO; GO:0009507; C:chloroplast; IDA:UniProtKB.
DR GO; GO:0009536; C:plastid; IDA:UniProtKB.
DR GO; GO:0015935; C:small ribosomal subunit; IBA:GO_Central.
DR GO; GO:0070181; F:small ribosomal subunit rRNA binding; IBA:GO_Central.
DR GO; GO:0003735; F:structural constituent of ribosome; IBA:GO_Central.
DR GO; GO:0003746; F:translation elongation factor activity; IEA:UniProtKB-KW.
DR GO; GO:0051644; P:plastid localization; IMP:UniProtKB.
DR GO; GO:0042794; P:plastid rRNA transcription; IMP:UniProtKB.
DR GO; GO:0042793; P:plastid transcription; IMP:UniProtKB.
DR GO; GO:0080022; P:primary root development; IMP:UniProtKB.
DR GO; GO:0010468; P:regulation of gene expression; IMP:UniProtKB.
DR GO; GO:2000023; P:regulation of lateral root development; IMP:UniProtKB.
DR GO; GO:0010109; P:regulation of photosynthesis; IMP:UniProtKB.
DR GO; GO:0010082; P:regulation of root meristem growth; IMP:UniProtKB.
DR GO; GO:2001279; P:regulation of unsaturated fatty acid biosynthetic process; IMP:UniProtKB.
DR GO; GO:0008380; P:RNA splicing; IMP:UniProtKB.
DR GO; GO:0010071; P:root meristem specification; IMP:UniProtKB.
DR GO; GO:0006364; P:rRNA processing; IMP:UniProtKB.
DR CDD; cd00473; bS6; 1.
DR Gene3D; 3.30.70.60; -; 1.
DR HAMAP; MF_00360; Ribosomal_S6; 1.
DR InterPro; IPR000529; Ribosomal_S6.
DR InterPro; IPR020814; Ribosomal_S6_plastid/chlpt.
DR InterPro; IPR035980; Ribosomal_S6_sf.
DR InterPro; IPR014717; Transl_elong_EF1B/ribosomal_S6.
DR PANTHER; PTHR21011; PTHR21011; 1.
DR Pfam; PF01250; Ribosomal_S6; 1.
DR SUPFAM; SSF54995; SSF54995; 1.
DR TIGRFAMs; TIGR00166; S6; 1.
PE 1: Evidence at protein level;
KW Chloroplast; Developmental protein; Elongation factor; Plastid;
KW Protein biosynthesis; Reference proteome; Ribonucleoprotein;
KW Ribosomal protein; RNA-binding; rRNA-binding; Transit peptide.
FT TRANSIT 1..47
FT /note="Chloroplast"
FT /evidence="ECO:0000255"
FT CHAIN 48..314
FT /note="Protein REGULATOR OF FATTY ACID COMPOSITION 3,
FT chloroplastic"
FT /id="PRO_0000455730"
FT CONFLICT 242
FT /note="E -> G (in Ref. 5; AAM62870)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 314 AA; 36276 MW; E82D0C6B852E616C CRC64;
MESLLHASSS LVSLRPRIDG RDSFINPSRV CLNPSLGRRG SKPLPLVAAA KKKKSKKDDN
HNFSARPDEA TGPFPESILL KEKKIDEEGD LLPEFADAEE KELYQFLDLQ LQSDLNEERM
RHYEVVYLIH EKHAEEVESI NQKVQDYLKE KKGKVWRFSD WGMRRLAYKI QKAENAHYIL
MNFEIEAKYL NEFKGLLDSD ERVIRHLVMK RDEAITEDCP PPPEFHSVRA GDEYYDDDEE
EEIEEDEDEG EGEDEEDADN IEYEVDDDGN VVMVLYGDEE EGEEEEDGAS EQEEGQDKST
NGRRETRRTV NVGG
