ID   RS4B_YEAST              Reviewed;         261 AA.
AC   P0CX36; D3DLF2; P05753;
DT   28-JUN-2011, integrated into UniProtKB/Swiss-Prot.
DT   28-JUN-2011, sequence version 1.
DT   27-MAR-2024, entry version 96.
DE   RecName: Full=Small ribosomal subunit protein eS4B {ECO:0000303|PubMed:24524803};
DE   AltName: Full=40S ribosomal protein S4-B {ECO:0000303|PubMed:9559554};
DE   AltName: Full=RP5;
DE   AltName: Full=S7;
DE   AltName: Full=YS6;
GN   Name=RPS4B {ECO:0000303|PubMed:9559554}; Synonyms=RPS7A;
GN   OrderedLocusNames=YHR203C;
OS   Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast).
OC   Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes;
OC   Saccharomycetales; Saccharomycetaceae; Saccharomyces.
OX   NCBI_TaxID=559292;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RX   PubMed=1737755; DOI=10.1016/s0021-9258(19)50687-1;
RA   Synetos D., Dabeva M.D., Warner J.R.;
RT   "The yeast ribosomal protein S7 and its genes.";
RL   J. Biol. Chem. 267:3008-3013(1992).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=ATCC 204508 / S288c;
RX   PubMed=8091229; DOI=10.1126/science.8091229;
RA   Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Dover J., Du Z.,
RA   Favello A., Fulton L., Gattung S., Geisel C., Kirsten J., Kucaba T.,
RA   Hillier L.W., Jier M., Johnston L., Langston Y., Latreille P., Louis E.J.,
RA   Macri C., Mardis E., Menezes S., Mouser L., Nhan M., Rifkin L., Riles L.,
RA   St Peter H., Trevaskis E., Vaughan K., Vignati D., Wilcox L., Wohldman P.,
RA   Waterston R., Wilson R., Vaudin M.;
RT   "Complete nucleotide sequence of Saccharomyces cerevisiae chromosome
RT   VIII.";
RL   Science 265:2077-2082(1994).
RN   [3]
RP   SEQUENCE REVISION TO 5.
RA   Jia Y., Cherry J.M.;
RL   Submitted (SEP-1997) to the EMBL/GenBank/DDBJ databases.
RN   [4]
RP   GENOME REANNOTATION.
RC   STRAIN=ATCC 204508 / S288c;
RX   PubMed=24374639; DOI=10.1534/g3.113.008995;
RA   Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R.,
RA   Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S.,
RA   Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.;
RT   "The reference genome sequence of Saccharomyces cerevisiae: Then and now.";
RL   G3 (Bethesda) 4:389-398(2014).
RN   [5]
RP   PARTIAL PROTEIN SEQUENCE OF 2-29, AND CLEAVAGE OF INITIATOR METHIONINE.
RX   PubMed=6814480; DOI=10.1021/bi00262a005;
RA   Otaka E., Higo K., Osawa S.;
RT   "Isolation of seventeen proteins and amino-terminal amino acid sequences of
RT   eight proteins from cytoplasmic ribosomes of yeast.";
RL   Biochemistry 21:4545-4550(1982).
RN   [6]
RP   NOMENCLATURE, AND SUBUNIT.
RX   PubMed=9559554;
RX   DOI=10.1002/(sici)1097-0061(19980330)14:5<471::aid-yea241>3.0.co;2-u;
RA   Planta R.J., Mager W.H.;
RT   "The list of cytoplasmic ribosomal proteins of Saccharomyces cerevisiae.";
RL   Yeast 14:471-477(1998).
RN   [7]
RP   SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
RX   PubMed=14562095; DOI=10.1038/nature02026;
RA   Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W.,
RA   Weissman J.S., O'Shea E.K.;
RT   "Global analysis of protein localization in budding yeast.";
RL   Nature 425:686-691(2003).
RN   [8]
RP   LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
RX   PubMed=14562106; DOI=10.1038/nature02046;
RA   Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N.,
RA   O'Shea E.K., Weissman J.S.;
RT   "Global analysis of protein expression in yeast.";
RL   Nature 425:737-741(2003).
RN   [9]
RP   UBIQUITINATION [LARGE SCALE ANALYSIS] AT LYS-168, AND IDENTIFICATION BY
RP   MASS SPECTROMETRY.
RC   STRAIN=SUB592;
RX   PubMed=12872131; DOI=10.1038/nbt849;
RA   Peng J., Schwartz D., Elias J.E., Thoreen C.C., Cheng D., Marsischky G.,
RA   Roelofs J., Finley D., Gygi S.P.;
RT   "A proteomics approach to understanding protein ubiquitination.";
RL   Nat. Biotechnol. 21:921-926(2003).
RN   [10]
RP   PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-247, AND IDENTIFICATION BY
RP   MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC   STRAIN=YAL6B;
RX   PubMed=15665377; DOI=10.1074/mcp.m400219-mcp200;
RA   Gruhler A., Olsen J.V., Mohammed S., Mortensen P., Faergeman N.J., Mann M.,
RA   Jensen O.N.;
RT   "Quantitative phosphoproteomics applied to the yeast pheromone signaling
RT   pathway.";
RL   Mol. Cell. Proteomics 4:310-327(2005).
RN   [11]
RP   PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-32, AND IDENTIFICATION BY
RP   MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC   STRAIN=ADR376;
RX   PubMed=17330950; DOI=10.1021/pr060559j;
RA   Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J.,
RA   Elias J.E., Gygi S.P.;
RT   "Large-scale phosphorylation analysis of alpha-factor-arrested
RT   Saccharomyces cerevisiae.";
RL   J. Proteome Res. 6:1190-1197(2007).
RN   [12]
RP   PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-115, AND IDENTIFICATION BY
RP   MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RX   PubMed=17287358; DOI=10.1073/pnas.0607084104;
RA   Chi A., Huttenhower C., Geer L.Y., Coon J.J., Syka J.E.P., Bai D.L.,
RA   Shabanowitz J., Burke D.J., Troyanskaya O.G., Hunt D.F.;
RT   "Analysis of phosphorylation sites on proteins from Saccharomyces
RT   cerevisiae by electron transfer dissociation (ETD) mass spectrometry.";
RL   Proc. Natl. Acad. Sci. U.S.A. 104:2193-2198(2007).
RN   [13]
RP   SUBUNIT, AND SUBCELLULAR LOCATION.
RX   PubMed=22096102; DOI=10.1126/science.1212642;
RA   Ben-Shem A., Garreau de Loubresse N., Melnikov S., Jenner L., Yusupova G.,
RA   Yusupov M.;
RT   "The structure of the eukaryotic ribosome at 3.0 A resolution.";
RL   Science 334:1524-1529(2011).
RN   [14]
RP   UBIQUITINATION [LARGE SCALE ANALYSIS] AT LYS-62; LYS-134; LYS-161; LYS-168;
RP   LYS-174; LYS-179; LYS-211 AND LYS-233, AND IDENTIFICATION BY MASS
RP   SPECTROMETRY [LARGE SCALE ANALYSIS].
RX   PubMed=22106047; DOI=10.1002/pmic.201100166;
RA   Starita L.M., Lo R.S., Eng J.K., von Haller P.D., Fields S.;
RT   "Sites of ubiquitin attachment in Saccharomyces cerevisiae.";
RL   Proteomics 12:236-240(2012).
RN   [15]
RP   NOMENCLATURE.
RX   PubMed=24524803; DOI=10.1016/j.sbi.2014.01.002;
RA   Ban N., Beckmann R., Cate J.H.D., Dinman J.D., Dragon F., Ellis S.R.,
RA   Lafontaine D.L.J., Lindahl L., Liljas A., Lipton J.M., McAlear M.A.,
RA   Moore P.B., Noller H.F., Ortega J., Panse V.G., Ramakrishnan V.,
RA   Spahn C.M.T., Steitz T.A., Tchorzewski M., Tollervey D., Warren A.J.,
RA   Williamson J.R., Wilson D., Yonath A., Yusupov M.;
RT   "A new system for naming ribosomal proteins.";
RL   Curr. Opin. Struct. Biol. 24:165-169(2014).
CC   -!- FUNCTION: Component of the ribosome, a large ribonucleoprotein complex
CC       responsible for the synthesis of proteins in the cell. The small
CC       ribosomal subunit (SSU) binds messenger RNAs (mRNAs) and translates the
CC       encoded message by selecting cognate aminoacyl-transfer RNA (tRNA)
CC       molecules. The large subunit (LSU) contains the ribosomal catalytic
CC       site termed the peptidyl transferase center (PTC), which catalyzes the
CC       formation of peptide bonds, thereby polymerizing the amino acids
CC       delivered by tRNAs into a polypeptide chain. The nascent polypeptides
CC       leave the ribosome through a tunnel in the LSU and interact with
CC       protein factors that function in enzymatic processing, targeting, and
CC       the membrane insertion of nascent chains at the exit of the ribosomal
CC       tunnel. {ECO:0000305|PubMed:22096102}.
CC   -!- SUBUNIT: Component of the small ribosomal subunit (SSU). Mature yeast
CC       ribosomes consist of a small (40S) and a large (60S) subunit. The 40S
CC       small subunit contains 1 molecule of ribosomal RNA (18S rRNA) and 33
CC       different proteins (encoded by 57 genes). The large 60S subunit
CC       contains 3 rRNA molecules (25S, 5.8S and 5S rRNA) and 46 different
CC       proteins (encoded by 81 genes) (PubMed:9559554, PubMed:22096102).
CC       {ECO:0000269|PubMed:22096102, ECO:0000305|PubMed:9559554}.
CC   -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000269|PubMed:14562095,
CC       ECO:0000269|PubMed:22096102}.
CC   -!- MISCELLANEOUS: Present with 102000 molecules/cell in log phase SD
CC       medium. {ECO:0000269|PubMed:14562106}.
CC   -!- MISCELLANEOUS: There are 2 genes for eS4 in yeast. {ECO:0000305}.
CC   -!- SIMILARITY: Belongs to the eukaryotic ribosomal protein eS4 family.
CC       {ECO:0000305}.
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DR   EMBL; M64294; AAA35012.1; -; Genomic_DNA.
DR   EMBL; U00030; AAB68372.1; -; Genomic_DNA.
DR   EMBL; BK006934; DAA06896.1; -; Genomic_DNA.
DR   PIR; S20054; S20054.
DR   RefSeq; NP_012073.1; NM_001179334.1.
DR   RefSeq; NP_012679.3; NM_001181803.3.
DR   PDB; 7ZW0; EM; 2.40 A; sS=1-261.
DR   PDB; 8CAH; EM; 3.00 A; S=1-261.
DR   PDB; 8CAS; EM; 3.30 A; S=1-261.
DR   PDB; 8CBJ; EM; 3.80 A; E=1-261.
DR   PDBsum; 7ZW0; -.
DR   PDBsum; 8CAH; -.
DR   PDBsum; 8CAS; -.
DR   PDBsum; 8CBJ; -.
DR   AlphaFoldDB; P0CX36; -.
DR   EMDB; EMD-14990; -.
DR   EMDB; EMD-8473; -.
DR   SMR; P0CX36; -.
DR   BioGRID; 33901; 259.
DR   BioGRID; 36637; 392.
DR   IntAct; P0CX36; 3.
DR   MINT; P0CX36; -.
DR   CarbonylDB; P0CX36; -.
DR   iPTMnet; P0CX36; -.
DR   EnsemblFungi; YHR203C_mRNA; YHR203C; YHR203C.
DR   EnsemblFungi; YJR145C_mRNA; YJR145C; YJR145C.
DR   GeneID; 853610; -.
DR   GeneID; 856610; -.
DR   KEGG; sce:YHR203C; -.
DR   KEGG; sce:YJR145C; -.
DR   AGR; SGD:S000001246; -.
DR   SGD; S000001246; RPS4B.
DR   VEuPathDB; FungiDB:YHR203C; -.
DR   VEuPathDB; FungiDB:YJR145C; -.
DR   GeneTree; ENSGT00390000005569; -.
DR   HOGENOM; CLU_060400_1_0_1; -.
DR   InParanoid; P0CX36; -.
DR   OrthoDB; 5471107at2759; -.
DR   BioCyc; YEAST:G3O-31230-MONOMER; -.
DR   Reactome; R-SCE-156827; L13a-mediated translational silencing of Ceruloplasmin expression.
DR   Reactome; R-SCE-1799339; SRP-dependent cotranslational protein targeting to membrane.
DR   Reactome; R-SCE-6791226; Major pathway of rRNA processing in the nucleolus and cytosol.
DR   Reactome; R-SCE-72649; Translation initiation complex formation.
DR   Reactome; R-SCE-72689; Formation of a pool of free 40S subunits.
DR   Reactome; R-SCE-72695; Formation of the ternary complex, and subsequently, the 43S complex.
DR   Reactome; R-SCE-72702; Ribosomal scanning and start codon recognition.
DR   Reactome; R-SCE-72706; GTP hydrolysis and joining of the 60S ribosomal subunit.
DR   Reactome; R-SCE-975956; Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
DR   Reactome; R-SCE-975957; Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).
DR   BioGRID-ORCS; 853610; 2 hits in 10 CRISPR screens.
DR   BioGRID-ORCS; 856610; 3 hits in 10 CRISPR screens.
DR   PRO; PR:P0CX36; -.
DR   Proteomes; UP000002311; Chromosome VIII.
DR   RNAct; P0CX36; Protein.
DR   ExpressionAtlas; P0CX36; baseline and differential.
DR   GO; GO:0030686; C:90S preribosome; HDA:SGD.
DR   GO; GO:0005829; C:cytosol; TAS:Reactome.
DR   GO; GO:0022627; C:cytosolic small ribosomal subunit; IDA:SGD.
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; IDA:SGD.
DR   GO; GO:0002181; P:cytoplasmic translation; IC:SGD.
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; RNA-binding S4 domain; 1.
DR   HAMAP; MF_00485; Ribosomal_eS4; 1.
DR   InterPro; IPR005824; KOW.
DR   InterPro; IPR014722; Rib_uL2_dom2.
DR   InterPro; IPR000876; Ribosomal_eS4.
DR   InterPro; IPR032277; Ribosomal_eS4_C.
DR   InterPro; IPR013845; Ribosomal_eS4_central_region.
DR   InterPro; IPR038237; Ribosomal_eS4_central_sf.
DR   InterPro; IPR041982; Ribosomal_eS4_KOW.
DR   InterPro; IPR013843; Ribosomal_eS4_N.
DR   InterPro; IPR018199; Ribosomal_eS4_N_CS.
DR   InterPro; IPR002942; S4_RNA-bd.
DR   InterPro; IPR036986; S4_RNA-bd_sf.
DR   PANTHER; PTHR11581; 30S/40S RIBOSOMAL PROTEIN S4; 1.
DR   PANTHER; PTHR11581:SF0; 40S RIBOSOMAL PROTEIN S4; 1.
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; SM00363; S4; 1.
DR   SUPFAM; SSF55174; Alpha-L RNA-binding motif; 1.
DR   PROSITE; PS00528; RIBOSOMAL_S4E; 1.
DR   PROSITE; PS50889; S4; 1.
PE   1: Evidence at protein level;
KW   3D-structure; Cytoplasm; Direct protein sequencing; Isopeptide bond;
KW   Phosphoprotein; Reference proteome; Ribonucleoprotein; Ribosomal protein;
KW   RNA-binding; rRNA-binding; Ubl conjugation.
FT   INIT_MET        1
FT                   /note="Removed"
FT                   /evidence="ECO:0000269|PubMed:6814480"
FT   CHAIN           2..261
FT                   /note="Small ribosomal subunit protein eS4B"
FT                   /id="PRO_0000409764"
FT   DOMAIN          42..105
FT                   /note="S4 RNA-binding"
FT   MOD_RES         32
FT                   /note="Phosphoserine"
FT                   /evidence="ECO:0007744|PubMed:17330950"
FT   MOD_RES         115
FT                   /note="Phosphothreonine"
FT                   /evidence="ECO:0007744|PubMed:17287358"
FT   MOD_RES         247
FT                   /note="Phosphoserine"
FT                   /evidence="ECO:0007744|PubMed:15665377"
FT   CROSSLNK        62
FT                   /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT                   G-Cter in ubiquitin)"
FT                   /evidence="ECO:0007744|PubMed:22106047"
FT   CROSSLNK        134
FT                   /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT                   G-Cter in ubiquitin)"
FT                   /evidence="ECO:0007744|PubMed:22106047"
FT   CROSSLNK        161
FT                   /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT                   G-Cter in ubiquitin)"
FT                   /evidence="ECO:0007744|PubMed:22106047"
FT   CROSSLNK        168
FT                   /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT                   G-Cter in ubiquitin)"
FT                   /evidence="ECO:0007744|PubMed:22106047"
FT   CROSSLNK        174
FT                   /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT                   G-Cter in ubiquitin)"
FT                   /evidence="ECO:0007744|PubMed:22106047"
FT   CROSSLNK        179
FT                   /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT                   G-Cter in ubiquitin)"
FT                   /evidence="ECO:0007744|PubMed:22106047"
FT   CROSSLNK        211
FT                   /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT                   G-Cter in ubiquitin)"
FT                   /evidence="ECO:0007744|PubMed:22106047"
FT   CROSSLNK        233
FT                   /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT                   G-Cter in ubiquitin)"
FT                   /evidence="ECO:0007744|PubMed:22106047"
SQ   SEQUENCE   261 AA;  29410 MW;  F109594560F34734 CRC64;
     MARGPKKHLK RLAAPHHWLL DKLSGCYAPR PSAGPHKLRE SLPLIVFLRN RLKYALNGRE
     VKAILMQRHV KVDGKVRTDT TYPAGFMDVI TLDATNENFR LVYDVKGRFA VHRITDEEAS
     YKLGKVKKVQ LGKKGVPYVV THDGRTIRYP DPNIKVNDTV KIDLASGKIT DFIKFDAGKL
     VYVTGGRNLG RIGTIVHKER HDGGFDLVHI KDSLDNTFVT RLNNVFVIGE QGKPYISLPK
     GKGIKLSIAE ERDRRRAQQG L
//