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P14126

- RL3_YEAST

UniProt

P14126 - RL3_YEAST

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Protein

60S ribosomal protein L3

Gene

RPL3

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

GO - Molecular functioni

  1. structural constituent of ribosome Source: SGD

GO - Biological processi

  1. cytoplasmic translation Source: SGD
  2. ribosomal large subunit assembly Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal protein

Enzyme and pathway databases

BioCyciYEAST:G3O-33603-MONOMER.
ReactomeiREACT_188965. SRP-dependent cotranslational protein targeting to membrane.
REACT_189050. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).
REACT_189183. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
REACT_217188. Formation of a pool of free 40S subunits.
REACT_232946. GTP hydrolysis and joining of the 60S ribosomal subunit.
REACT_252688. L13a-mediated translational silencing of Ceruloplasmin expression.
REACT_257951. Peptide chain elongation.

Names & Taxonomyi

Protein namesi
Recommended name:
60S ribosomal protein L3
Alternative name(s):
Maintenance of killer protein 8
RP1
Trichodermin resistance protein
YL1
Gene namesi
Name:RPL3
Synonyms:MAK8, TCM1
Ordered Locus Names:YOR063W
ORF Names:YOR29-14
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome XV

Organism-specific databases

SGDiS000005589. RPL3.

Subcellular locationi

Cytoplasm 1 Publication

GO - Cellular componenti

  1. cytosolic large ribosomal subunit Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Disruption phenotypei

A mutant confers resistance to trichodermin, a trichotecene toxin produced by plant-pathogenic fungi.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed2 Publications
Chaini2 – 38738660S ribosomal protein L3PRO_0000077251Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei24 – 241Phosphoserine1 Publication
Modified residuei103 – 1031Phosphothreonine1 Publication
Modified residuei156 – 1561Phosphoserine1 Publication
Modified residuei243 – 2431Pros-methylhistidine1 Publication
Modified residuei297 – 2971Phosphoserine1 Publication

Keywords - PTMi

Methylation, Phosphoprotein

Proteomic databases

MaxQBiP14126.
PaxDbiP14126.
PeptideAtlasiP14126.
PRIDEiP14126.

Expressioni

Gene expression databases

GenevestigatoriP14126.

Interactioni

Subunit structurei

Component of the large 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).1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
SRV2P175553EBI-15364,EBI-4024

Protein-protein interaction databases

BioGridi34462. 199 interactions.
DIPiDIP-6264N.
IntActiP14126. 104 interactions.
MINTiMINT-604187.
STRINGi4932.YOR063W.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1K5Ymodel-C8-366[»]
1S1Ielectron microscopy11.70C2-387[»]
1VW8electron microscopy6.10C1-387[»]
1VWUelectron microscopy6.10C1-387[»]
1VXVelectron microscopy6.20C1-387[»]
1VXYelectron microscopy6.30C1-387[»]
3IZSelectron microscopy-C1-387[»]
3J65electron microscopy8.70C1-387[»]
3O58X-ray4.00C1-387[»]
3O5HX-ray4.00C1-387[»]
3U5EX-ray3.00B1-387[»]
3U5IX-ray3.00B1-387[»]
4B6Aelectron microscopy8.10B1-387[»]
4BYNelectron microscopy4.30B2-387[»]
4BYUelectron microscopy6.60B2-387[»]
4CUWelectron microscopy3.70B1-387[»]
ProteinModelPortaliP14126.
SMRiP14126. Positions 2-387.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP14126.

Family & Domainsi

Sequence similaritiesi

Belongs to the ribosomal protein L3P family.Curated

Phylogenomic databases

eggNOGiCOG0087.
GeneTreeiENSGT00390000017606.
HOGENOMiHOG000107319.
InParanoidiP14126.
KOiK02925.
OMAiFQTFEEK.
OrthoDBiEOG7KQ2B9.

Family and domain databases

InterProiIPR000597. Ribosomal_L3.
IPR019926. Ribosomal_L3_CS.
IPR009000. Transl_B-barrel.
[Graphical view]
PfamiPF00297. Ribosomal_L3. 1 hit.
[Graphical view]
SUPFAMiSSF50447. SSF50447. 1 hit.
PROSITEiPS00474. RIBOSOMAL_L3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P14126-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSHRKYEAPR HGHLGFLPRK RAASIRARVK AFPKDDRSKP VALTSFLGYK
60 70 80 90 100
AGMTTIVRDL DRPGSKFHKR EVVEAVTVVD TPPVVVVGVV GYVETPRGLR
110 120 130 140 150
SLTTVWAEHL SDEVKRRFYK NWYKSKKKAF TKYSAKYAQD GAGIERELAR
160 170 180 190 200
IKKYASVVRV LVHTQIRKTP LAQKKAHLAE IQLNGGSISE KVDWAREHFE
210 220 230 240 250
KTVAVDSVFE QNEMIDAIAV TKGHGFEGVT HRWGTKKLPR KTHRGLRKVA
260 270 280 290 300
CIGAWHPAHV MWSVARAGQR GYHSRTSINH KIYRVGKGDD EANGATSFDR
310 320 330 340 350
TKKTITPMGG FVHYGEIKND FIMVKGCIPG NRKRIVTLRK SLYTNTSRKA
360 370 380
LEEVSLKWID TASKFGKGRF QTPAEKHAFM GTLKKDL
Length:387
Mass (Da):43,758
Last modified:January 23, 2007 - v4
Checksum:i986769A218E9698A
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti255 – 2551W → C in AAA88732. (PubMed:6305925)Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J01351 Genomic DNA. Translation: AAA88732.1.
Z74971 Genomic DNA. Translation: CAA99256.1.
Z70678 Genomic DNA. Translation: CAA94548.1.
BK006948 Genomic DNA. Translation: DAA10842.1.
PIRiS66946. R5BY4E.
RefSeqiNP_014706.1. NM_001183482.1.

Genome annotation databases

EnsemblFungiiYOR063W; YOR063W; YOR063W.
GeneIDi854229.
KEGGisce:YOR063W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J01351 Genomic DNA. Translation: AAA88732.1 .
Z74971 Genomic DNA. Translation: CAA99256.1 .
Z70678 Genomic DNA. Translation: CAA94548.1 .
BK006948 Genomic DNA. Translation: DAA10842.1 .
PIRi S66946. R5BY4E.
RefSeqi NP_014706.1. NM_001183482.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1K5Y model - C 8-366 [» ]
1S1I electron microscopy 11.70 C 2-387 [» ]
1VW8 electron microscopy 6.10 C 1-387 [» ]
1VWU electron microscopy 6.10 C 1-387 [» ]
1VXV electron microscopy 6.20 C 1-387 [» ]
1VXY electron microscopy 6.30 C 1-387 [» ]
3IZS electron microscopy - C 1-387 [» ]
3J65 electron microscopy 8.70 C 1-387 [» ]
3O58 X-ray 4.00 C 1-387 [» ]
3O5H X-ray 4.00 C 1-387 [» ]
3U5E X-ray 3.00 B 1-387 [» ]
3U5I X-ray 3.00 B 1-387 [» ]
4B6A electron microscopy 8.10 B 1-387 [» ]
4BYN electron microscopy 4.30 B 2-387 [» ]
4BYU electron microscopy 6.60 B 2-387 [» ]
4CUW electron microscopy 3.70 B 1-387 [» ]
ProteinModelPortali P14126.
SMRi P14126. Positions 2-387.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 34462. 199 interactions.
DIPi DIP-6264N.
IntActi P14126. 104 interactions.
MINTi MINT-604187.
STRINGi 4932.YOR063W.

Proteomic databases

MaxQBi P14126.
PaxDbi P14126.
PeptideAtlasi P14126.
PRIDEi P14126.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YOR063W ; YOR063W ; YOR063W .
GeneIDi 854229.
KEGGi sce:YOR063W.

Organism-specific databases

SGDi S000005589. RPL3.

Phylogenomic databases

eggNOGi COG0087.
GeneTreei ENSGT00390000017606.
HOGENOMi HOG000107319.
InParanoidi P14126.
KOi K02925.
OMAi FQTFEEK.
OrthoDBi EOG7KQ2B9.

Enzyme and pathway databases

BioCyci YEAST:G3O-33603-MONOMER.
Reactomei REACT_188965. SRP-dependent cotranslational protein targeting to membrane.
REACT_189050. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).
REACT_189183. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
REACT_217188. Formation of a pool of free 40S subunits.
REACT_232946. GTP hydrolysis and joining of the 60S ribosomal subunit.
REACT_252688. L13a-mediated translational silencing of Ceruloplasmin expression.
REACT_257951. Peptide chain elongation.

Miscellaneous databases

EvolutionaryTracei P14126.
NextBioi 976109.
PROi P14126.

Gene expression databases

Genevestigatori P14126.

Family and domain databases

InterProi IPR000597. Ribosomal_L3.
IPR019926. Ribosomal_L3_CS.
IPR009000. Transl_B-barrel.
[Graphical view ]
Pfami PF00297. Ribosomal_L3. 1 hit.
[Graphical view ]
SUPFAMi SSF50447. SSF50447. 1 hit.
PROSITEi PS00474. RIBOSOMAL_L3. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Nucleotide sequence of the tcm1 gene (ribosomal protein L3) of Saccharomyces cerevisiae."
    Schultz L.D., Friesen J.D.
    J. Bacteriol. 155:8-14(1983) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], DISRUPTION PHENOTYPE.
    Strain: CLP1.
  2. "The sequence of a 54.7 kb fragment of yeast chromosome XV reveals the presence of two tRNAs and 24 new open reading frames."
    Valens M., Bohn C., Daignan-Fornier B., Dang V.-D., Bolotin-Fukuhara M.
    Yeast 13:379-390(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XV."
    Dujon B., Albermann K., Aldea M., Alexandraki D., Ansorge W., Arino J., Benes V., Bohn C., Bolotin-Fukuhara M., Bordonne R., Boyer J., Camasses A., Casamayor A., Casas C., Cheret G., Cziepluch C., Daignan-Fornier B., Dang V.-D.
    , de Haan M., Delius H., Durand P., Fairhead C., Feldmann H., Gaillon L., Galisson F., Gamo F.-J., Gancedo C., Goffeau A., Goulding S.E., Grivell L.A., Habbig B., Hand N.J., Hani J., Hattenhorst U., Hebling U., Hernando Y., Herrero E., Heumann K., Hiesel R., Hilger F., Hofmann B., Hollenberg C.P., Hughes B., Jauniaux J.-C., Kalogeropoulos A., Katsoulou C., Kordes E., Lafuente M.J., Landt O., Louis E.J., Maarse A.C., Madania A., Mannhaupt G., Marck C., Martin R.P., Mewes H.-W., Michaux G., Paces V., Parle-McDermott A.G., Pearson B.M., Perrin A., Pettersson B., Poch O., Pohl T.M., Poirey R., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rechmann S., Schwager C., Schweizer M., Sor F., Sterky F., Tarassov I.A., Teodoru C., Tettelin H., Thierry A., Tobiasch E., Tzermia M., Uhlen M., Unseld M., Valens M., Vandenbol M., Vetter I., Vlcek C., Voet M., Volckaert G., Voss H., Wambutt R., Wedler H., Wiemann S., Winsor B., Wolfe K.H., Zollner A., Zumstein E., Kleine K.
    Nature 387:98-102(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  4. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  5. "Yeast ribosomal proteins: VII. Cytoplasmic ribosomal proteins from Schizosaccharomyces pombe."
    Otaka E., Higo K., Itoh T.
    Mol. Gen. Genet. 191:519-524(1983) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-20.
  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] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-10.
  7. "The list of cytoplasmic ribosomal proteins of Saccharomyces cerevisiae."
    Planta R.J., Mager W.H.
    Yeast 14:471-477(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NOMENCLATURE, SUBUNIT.
  8. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  9. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  10. "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] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-103, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Strain: ADR376.
  11. "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] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-24 AND SER-156, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  12. "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] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  13. "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
    Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
    Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-297, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  14. "A novel 3-methylhistidine modification of yeast ribosomal protein Rpl3 is dependent upon the YIL110W methyltransferase."
    Webb K.J., Zurita-Lopez C.I., Al-Hadid Q., Laganowsky A., Young B.D., Lipson R.S., Souda P., Faull K.F., Whitelegge J.P., Clarke S.G.
    J. Biol. Chem. 285:37598-37606(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: METHYLATION AT HIS-243.
  15. "Sites of ubiquitin attachment in Saccharomyces cerevisiae."
    Starita L.M., Lo R.S., Eng J.K., von Haller P.D., Fields S.
    Proteomics 12:236-240(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  16. "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] [Europe PMC] [Abstract]
    Cited for: 3D-STRUCTURE MODELING OF 8-366, ELECTRON MICROSCOPY.
  17. "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] [Europe PMC] [Abstract]
    Cited for: 3D-STRUCTURE MODELING, ELECTRON MICROSCOPY.
  18. "Crystal structure of the eukaryotic ribosome."
    Ben-Shem A., Jenner L., Yusupova G., Yusupov M.
    Science 330:1203-1209(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (4.0 ANGSTROMS) OF 80S RIBOSOME.
  19. Cited for: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS) OF 80S RIBOSOME.

Entry informationi

Entry nameiRL3_YEAST
AccessioniPrimary (citable) accession number: P14126
Secondary accession number(s): D6W2C6, Q08459
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 1, 1990
Last sequence update: January 23, 2007
Last modified: November 26, 2014
This is version 148 of the entry and version 4 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 450 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Ribosomal proteins
    Ribosomal proteins families and list of entries
  3. SIMILARITY comments
    Index of protein domains and families
  4. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  5. Yeast chromosome XV
    Yeast (Saccharomyces cerevisiae) chromosome XV: entries and gene names

External Data

Dasty 3