40S ribosomal protein S3 - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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P05750 (RS3_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified December 14, 2011. Version 133. History...

Clusters with 100%, 90%, 50% identity |

Documents (5) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
40S ribosomal protein S3

Alternative name(s):
RP13
YS3

Gene names

Name:	RPS3
Synonyms:	SUF14
Ordered Locus Names:	YNL178W
ORF Names:	N1653

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	240 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Subunit structure	Component of the small ribosomal subunit. Mature ribosomes consist of a small (40S) and a large (60S) subunit. The 40S subunit contains 32 different proteins (encoded by 56 genes) and 1 molecule of RNA (18S). The 60S subunit contains 46 different proteins (encoded by 81 genes) and 3 molecules of RNA (25S, 5.8S and 5S). Ref.8
Subcellular location	Cytoplasm By similarity.
Miscellaneous	Present with 146000 molecules/cell in log phase SD medium. Ref.10
Sequence similarities	Belongs to the ribosomal protein S3P family. Contains 1 KH type-2 domain.

Ontologies

Keywords
Cellular component	Cytoplasm
Ligand	RNA-binding
Molecular function	Ribonucleoprotein Ribosomal protein
PTM	Isopeptide bond Phosphoprotein Ubl conjugation
Technical term	3D-structure Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological process	cytoplasmic translation Inferred by curator. Source: SGD rRNA export from nucleus Inferred from mutant phenotype. Source: SGD
Cellular component	90S preribosome Inferred from direct assay. Source: SGD cytosolic small ribosomal subunit Inferred from direct assay. Source: SGD preribosome, small subunit precursor Inferred from direct assay. Source: SGD
Molecular function	DNA-(apurinic or apyrimidinic site) lyase activity Inferred from direct assay. Source: SGD RNA binding Inferred from electronic annotation. Source: UniProtKB-KW structural constituent of ribosome Inferred from direct assay. Source: SGD
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Initiator methionine

Removed Ref.6 Ref.7 Ref.9

Chain

2 – 240

239

40S ribosomal protein S3

PRO_0000130332

Regions

Domain

21 – 92

KH type-2

Amino acid modifications

Modified residue

Phosphothreonine Ref.16

Modified residue

Phosphothreonine Ref.14

Modified residue

Phosphothreonine Ref.14

Modified residue

Phosphoserine Ref.16

Modified residue

129

Phosphoserine Ref.14

Modified residue

207

Phosphothreonine Ref.12 Ref.16

Modified residue

221

Phosphoserine Ref.12 Ref.13 Ref.14 Ref.15 Ref.16

Modified residue

231

Phosphothreonine Ref.12

Cross-link

212

Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) Ref.11

Experimental info

Sequence conflict

F → N in AAA35010. Ref.3

Sequence conflict

223 – 224

KD → NH in AAA35010. Ref.3

Sequences

Sequence

Length

Mass (Da)

Tools

P05750 [UniParc].

Last modified January 23, 2007. Version 5.
Checksum: B85C0DFEB011745F
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FASTA

240

26,503

        10         20         30         40         50         60 
MVALISKKRK LVADGVFYAE LNEFFTRELA EEGYSGVEVR VTPTKTEVII RATRTQDVLG 

        70         80         90        100        110        120 
ENGRRINELT LLVQKRFKYA PGTIVLYAER VQDRGLSAVA QAESMKFKLL NGLAIRRAAY 

       130        140        150        160        170        180 
GVVRYVMESG AKGCEVVVSG KLRAARAKAM KFADGFLIHS GQPVNDFIDT ATRHVLMRQG 

       190        200        210        220        230        240 
VLGIKVKIMR DPAKSRTGPK ALPDAVTIIE PKEEEPILAP SVKDYRPAEE TEAQAEPVEA

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The ribosomal protein gene RPS3 is an essential single copy gene of the yeast Saccharomyces cerevisiae." Finken-Eigen M., Domdey H., Koehrer K. Biochem. Biophys. Res. Commun. 223:397-403(1996) [PubMed: 8670293] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: DBY874.
[2]	"Yeast mRNA for ribosomal protein YS3." Okazaki M., Suzuki K., Otaka E. Submitted (NOV-1993) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: ATCC 204508 / S288c.
[3]	"Molecular cloning and analysis of the RPS3 gene of Saccharomyces cerevisiae." Burbee D.G., Armstrong B.C. Submitted (APR-1994) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[4]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications." Philippsen P., Kleine K., Poehlmann R., Duesterhoeft A., Hamberg K., Hegemann J.H., Obermaier B., Urrestarazu L.A., Aert R., Albermann K., Altmann R., Andre B., Baladron V., Ballesta J.P.G., Becam A.-M., Beinhauer J.D., Boskovic J., Buitrago M.J. Hani J. Nature 387:93-98(1997) [PubMed: 9169873] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[5]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[6]	"NH2-terminal acetylation of ribosomal proteins of Saccharomyces cerevisiae." Takakura H., Tsunasawa S., Miyagi M., Warner J.R. J. Biol. Chem. 267:5442-5445(1992) [PubMed: 1544921] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-21.
[7]	"Yeast ribosomal proteins. VIII. Isolation of two proteins and sequence characterization of twenty-four proteins from cytoplasmic ribosomes." Otaka E., Higo K., Itoh T. Mol. Gen. Genet. 195:544-546(1984) Cited for: PROTEIN SEQUENCE OF 2-21.
[8]	"The list of cytoplasmic ribosomal proteins of Saccharomyces cerevisiae." Planta R.J., Mager W.H. Yeast 14:471-477(1998) [PubMed: 9559554] [Abstract] Cited for: NOMENCLATURE, SUBUNIT.
[9]	"The action of N-terminal acetyltransferases on yeast ribosomal proteins." Arnold R.J., Polevoda B., Reilly J.P., Sherman F. J. Biol. Chem. 274:37035-37040(1999) [PubMed: 10601260] [Abstract] Cited for: CLEAVAGE OF INITIATOR METHIONINE.
[10]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[11]	"A proteomics approach to understanding protein ubiquitination." Peng J., Schwartz D., Elias J.E., Thoreen C.C., Cheng D., Marsischky G., Roelofs J., Finley D., Gygi S.P. Nat. Biotechnol. 21:921-926(2003) [PubMed: 12872131] [Abstract] Cited for: UBIQUITINATION [LARGE SCALE ANALYSIS] AT LYS-212, MASS SPECTROMETRY. Strain: SUB592.
[12]	"Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway." Gruhler A., Olsen J.V., Mohammed S., Mortensen P., Faergeman N.J., Mann M., Jensen O.N. Mol. Cell. Proteomics 4:310-327(2005) [PubMed: 15665377] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-207; SER-221 AND THR-231, MASS SPECTROMETRY. Strain: YAL6B.
[13]	"Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae." Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J., Elias J.E., Gygi S.P. J. Proteome Res. 6:1190-1197(2007) [PubMed: 17330950] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-221, MASS SPECTROMETRY. Strain: ADR376.
[14]	"Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry." Chi A., Huttenhower C., Geer L.Y., Coon J.J., Syka J.E.P., Bai D.L., Shabanowitz J., Burke D.J., Troyanskaya O.G., Hunt D.F. Proc. Natl. Acad. Sci. U.S.A. 104:2193-2198(2007) [PubMed: 17287358] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-53; THR-70; SER-129 AND SER-221, MASS SPECTROMETRY.
[15]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed: 17563356] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-221, MASS SPECTROMETRY.
[16]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-44; SER-97; THR-207 AND SER-221, MASS SPECTROMETRY.
[17]	"Structure of the 80S ribosome from Saccharomyces cerevisiae -- tRNA-ribosome and subunit-subunit interactions." Spahn C.M.T., Beckmann R., Eswar N., Penczek P.A., Sali A., Blobel G., Frank J. Cell 107:373-386(2001) [PubMed: 11701127] [Abstract] Cited for: 3D-STRUCTURE MODELING OF 6-193, ELECTRON MICROSCOPY.
[18]	"Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation." Spahn C.M.T., Gomez-Lorenzo M.G., Grassucci R.A., Joergensen R., Andersen G.R., Beckmann R., Penczek P.A., Ballesta J.P.G., Frank J. EMBO J. 23:1008-1019(2004) [PubMed: 14976550] [Abstract] Cited for: 3D-STRUCTURE MODELING OF 2-193, ELECTRON MICROSCOPY.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

U34347 Genomic DNA. Translation: AAC49380.1.
D25285 mRNA. Translation: BAA04973.1.
L31405 Genomic DNA. Translation: AAA35010.1.
Z71454 Genomic DNA. Translation: CAA96070.1.
BK006947 Genomic DNA. Translation: DAA10373.1.

PIR

S48510.

RefSeq

NP_014221.1. NM_001183016.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1K5X	model	-	C	6-193	[»]
1S1H	electron microscopy	11.70	C	2-193	[»]
3IZB	electron microscopy	-	B	1-240	[»]
3O2Z	X-ray	4.00	C	1-240	[»]
3O30	X-ray	4.00	C	1-240	[»]

ProteinModelPortal

P05750.

SMR

P05750. Positions 6-217.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-4328N.

IntAct

P05750. 94 interactions.

MINT

MINT-512497.

STRING

P05750.

2D gel databases

UCD-2DPAGE

P05750.

Proteomic databases

PeptideAtlas

P05750.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YNL178W; YNL178W; YNL178W.

GeneID

855543.

KEGG

sce:YNL178W.

NMPDR

fig|4932.3.peg.5286.

Organism-specific databases

SGD

S000005122. RPS3.

Phylogenomic databases

eggNOG

fuNOG04933.

GeneTree

EFGT00050000005586.

HOGENOM

HBG748975.

OMA

RGMHFRR.

OrthoDB

EOG4GTPP2.

Gene expression databases

ArrayExpress

P05750.

Genevestigator

P05750.

GermOnline

YNL178W. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR004087. KH.
IPR015946. KH_dom-like_a/b.
IPR009019. KH_prok-type.
IPR004044. KH_type_2.
IPR001351. Ribosomal_S3_C.
IPR018280. Ribosomal_S3_CS.
IPR005703. Ribosomal_S3_euk/arc.
[Graphical view]

Gene3D

G3DSA:3.30.300.20. KH_prok. 1 hit.
G3DSA:3.30.1140.32. Ribosomal_S3_C. 1 hit.

K02985.

Pfam

PF07650. KH_2. 1 hit.
PF00189. Ribosomal_S3_C. 1 hit.
[Graphical view]

SMART

SM00322. KH. 1 hit.
[Graphical view]

SUPFAM

SSF54814. KH_prok. 1 hit.
SSF54821. Ribosomal_S3_C. 1 hit.

TIGRFAMs

TIGR01008. RpsC_E_A. 1 hit.

PROSITE

PS50823. KH_TYPE_2. 1 hit.
PS00548. RIBOSOMAL_S3. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

NextBio

979610.

Entry information

Entry name

RS3_YEAST

Accession

Primary (citable) accession number: P05750
Secondary accession number(s): D6W107

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1988
Last sequence update:	January 23, 2007
Last modified:	December 14, 2011
This is version 133 of the entry and version 5 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

Yeast chromosome XIV

Yeast (Saccharomyces cerevisiae) chromosome XIV: entries and gene names

Ribosomal proteins

Ribosomal proteins families and list of entries

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Amino acid modifications

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

2D gel databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents