RS42_ARATH
ID RS42_ARATH Reviewed; 262 AA.
AC P49204; Q42346; Q9FL39; Q9LYQ6;
DT 01-FEB-1996, integrated into UniProtKB/Swiss-Prot.
DT 13-DEC-2001, sequence version 4.
DT 25-MAY-2022, entry version 169.
DE RecName: Full=40S ribosomal protein S4-2;
GN Name=RPS4B; OrderedLocusNames=At5g07090; ORFNames=MOJ9.26, T28J14_30;
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=9679202; DOI=10.1093/dnares/5.2.131;
RA Kaneko T., Kotani H., Nakamura Y., Sato S., Asamizu E., Miyajima N.,
RA Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 5. V. Sequence
RT features of the regions of 1,381,565 bp covered by twenty one physically
RT assigned P1 and TAC clones.";
RL DNA Res. 5:131-145(1998).
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].
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 NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-122 AND 236-262.
RC STRAIN=cv. Columbia;
RX PubMed=8281187; DOI=10.1046/j.1365-313x.1993.04061051.x;
RA Hoefte H., Desprez T., Amselem J., Chiapello H., Rouze P., Caboche M.,
RA Moisan A., Jourjon M.-F., Charpenteau J.-L., Berthomieu P., Guerrier D.,
RA Giraudat J., Quigley F., Thomas F., Yu D.-Y., Mache R., Raynal M.,
RA Cooke R., Grellet F., Delseny M., Parmentier Y., de Marcillac G., Gigot C.,
RA Fleck J., Philipps G., Axelos M., Bardet C., Tremousaygue D., Lescure B.;
RT "An inventory of 1152 expressed sequence tags obtained by partial
RT sequencing of cDNAs from Arabidopsis thaliana.";
RL Plant J. 4:1051-1061(1993).
RN [7]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-72 AND 133-262.
RC STRAIN=cv. Columbia; TISSUE=Green siliques;
RX PubMed=8580968; DOI=10.1046/j.1365-313x.1996.09010101.x;
RA Cooke R., Raynal M., Laudie M., Grellet F., Delseny M., Morris P.-C.,
RA Guerrier D., Giraudat J., Quigley F., Clabault G., Li Y.-F., Mache R.,
RA Krivitzky M., Gy I.J.-J., Kreis M., Lecharny A., Parmentier Y., Marbach J.,
RA Fleck J., Clement B., Philipps G., Herve C., Bardet C., Tremousaygue D.,
RA Lescure B., Lacomme C., Roby D., Jourjon M.-F., Chabrier P.,
RA Charpenteau J.-L., Desprez T., Amselem J., Chiapello H., Hoefte H.;
RT "Further progress towards a catalogue of all Arabidopsis genes: analysis of
RT a set of 5000 non-redundant ESTs.";
RL Plant J. 9:101-124(1996).
RN [8]
RP GENE FAMILY ORGANIZATION, AND NOMENCLATURE.
RX PubMed=11598216; DOI=10.1104/pp.010265;
RA Barakat A., Szick-Miranda K., Chang I.-F., Guyot R., Blanc G., Cooke R.,
RA Delseny M., Bailey-Serres J.;
RT "The organization of cytoplasmic ribosomal protein genes in the Arabidopsis
RT genome.";
RL Plant Physiol. 127:398-415(2001).
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=1;
CC Comment=A number of isoforms are produced. According to EST
CC sequences.;
CC Name=1;
CC IsoId=P49204-1; Sequence=Displayed;
CC -!- SIMILARITY: Belongs to the eukaryotic ribosomal protein eS4 family.
CC {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAB11167.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=CAA79086.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR EMBL; AB010697; BAB11167.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AL163652; CAB87265.1; -; Genomic_DNA.
DR EMBL; CP002688; AED91107.1; -; Genomic_DNA.
DR EMBL; AY050933; AAK93610.1; -; mRNA.
DR EMBL; AY070769; AAL50106.1; -; mRNA.
DR EMBL; AY079417; AAL85148.1; -; mRNA.
DR EMBL; AY093715; AAM10339.1; -; mRNA.
DR EMBL; AY085205; AAM61755.1; -; mRNA.
DR EMBL; Z17994; CAA79086.1; ALT_INIT; mRNA.
DR EMBL; Z18498; CAA79206.1; -; mRNA.
DR EMBL; Z32619; CAA83563.1; -; mRNA.
DR EMBL; Z32618; CAA83562.1; -; mRNA.
DR EMBL; F20029; CAA23384.1; -; mRNA.
DR PIR; T48480; T48480.
DR RefSeq; NP_568179.1; NM_120791.4. [P49204-1]
DR AlphaFoldDB; P49204; -.
DR SMR; P49204; -.
DR BioGRID; 15879; 166.
DR IntAct; P49204; 1.
DR STRING; 3702.AT5G07090.1; -.
DR iPTMnet; P49204; -.
DR PaxDb; P49204; -.
DR EnsemblPlants; AT5G07090.1; AT5G07090.1; AT5G07090. [P49204-1]
DR GeneID; 830600; -.
DR Gramene; AT5G07090.1; AT5G07090.1; AT5G07090. [P49204-1]
DR KEGG; ath:AT5G07090; -.
DR Araport; AT5G07090; -.
DR TAIR; locus:2169339; AT5G07090.
DR eggNOG; KOG0378; Eukaryota.
DR HOGENOM; CLU_060400_1_0_1; -.
DR InParanoid; P49204; -.
DR OMA; PARASIC; -.
DR PhylomeDB; P49204; -.
DR PRO; PR:P49204; -.
DR Proteomes; UP000006548; Chromosome 5.
DR ExpressionAtlas; P49204; baseline and differential.
DR Genevisible; P49204; AT.
DR GO; GO:0022626; C:cytosolic ribosome; HDA:TAIR.
DR GO; GO:0022627; C:cytosolic small ribosomal subunit; IBA:GO_Central.
DR GO; GO:0000325; C:plant-type vacuole; HDA:TAIR.
DR GO; GO:0005886; C:plasma membrane; HDA:TAIR.
DR GO; GO:0003729; F:mRNA binding; IDA:TAIR.
DR GO; GO:0003723; F:RNA binding; IBA:GO_Central.
DR GO; GO:0019843; F:rRNA binding; IEA:UniProtKB-KW.
DR GO; GO:0003735; F:structural constituent of ribosome; IBA:GO_Central.
DR GO; GO:0006412; P:translation; IBA:GO_Central.
DR CDD; cd06087; KOW_RPS4; 1.
DR CDD; cd00165; S4; 1.
DR Gene3D; 2.30.30.30; -; 1.
DR Gene3D; 2.40.50.740; -; 1.
DR Gene3D; 3.10.290.10; -; 1.
DR HAMAP; MF_00485; Ribosomal_S4e; 1.
DR InterPro; IPR032277; 40S_S4_C.
DR InterPro; IPR005824; KOW.
DR InterPro; IPR041982; KOW_RPS4.
DR InterPro; IPR014722; Rib_L2_dom2.
DR InterPro; IPR000876; Ribosomal_S4e.
DR InterPro; IPR013845; Ribosomal_S4e_central_region.
DR InterPro; IPR038237; Ribosomal_S4e_central_sf.
DR InterPro; IPR013843; Ribosomal_S4e_N.
DR InterPro; IPR018199; Ribosomal_S4e_N_CS.
DR InterPro; IPR002942; S4_RNA-bd.
DR InterPro; IPR036986; S4_RNA-bd_sf.
DR PANTHER; PTHR11581; PTHR11581; 2.
DR Pfam; PF16121; 40S_S4_C; 1.
DR Pfam; PF00467; KOW; 1.
DR Pfam; PF00900; Ribosomal_S4e; 1.
DR Pfam; PF08071; RS4NT; 1.
DR Pfam; PF01479; S4; 1.
DR PIRSF; PIRSF002116; Ribosomal_S4; 1.
DR SMART; SM00739; KOW; 1.
DR PROSITE; PS00528; RIBOSOMAL_S4E; 1.
DR PROSITE; PS50889; S4; 1.
PE 2: Evidence at transcript level;
KW Alternative splicing; Cytoplasm; Reference proteome; Ribonucleoprotein;
KW Ribosomal protein; RNA-binding; rRNA-binding.
FT CHAIN 1..262
FT /note="40S ribosomal protein S4-2"
FT /id="PRO_0000130832"
FT DOMAIN 42..104
FT /note="S4 RNA-binding"
FT CONFLICT 28
FT /note="A -> G (in Ref. 7; CAA83563)"
FT /evidence="ECO:0000305"
FT CONFLICT 31
FT /note="P -> S (in Ref. 7; CAA83563)"
FT /evidence="ECO:0000305"
FT CONFLICT 53
FT /note="K -> M (in Ref. 7; CAA83563)"
FT /evidence="ECO:0000305"
FT CONFLICT 55
FT /note="A -> S (in Ref. 7; CAA83563)"
FT /evidence="ECO:0000305"
FT CONFLICT 92
FT /note="I -> IV (in Ref. 6; CAA79086)"
FT /evidence="ECO:0000305"
FT CONFLICT 257..258
FT /note="AS -> SA (in Ref. 7; CAA23384)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 262 AA; 29874 MW; EF0847171FE9CA67 CRC64;
MARGLKKHLK RLNAPKHWML DKLGGAFAPK PSSGPHKSRE CLPLVLIIRN RLKYALTYRE
VISILMQRHI QVDGKVRTDK TYPAGFMDVV SIPKTNENFR LLYDTKGRFR LHSIKDEEAK
FKLCKVRSIQ FGQKGIPYLN TYDGRTIRYP DPLIKPNDTI KLDLEENKIV EFIKFDVGNV
VMVTGGRNRG RVGVIKNREK HKGSFETIHI QDSTGHEFAT RLGNVYTIGK GTKPWVSLPK
GKGIKLTIIE EARKRLASQQ AA
