Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

60S ribosomal protein L39

Gene

RPL39

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

GO - Molecular functioni

  • structural constituent of ribosome Source: SGD

GO - Biological processi

  • cytoplasmic translation Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal protein

Enzyme and pathway databases

BioCyciYEAST:G3O-31621-MONOMER.
ReactomeiREACT_290856. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).
REACT_302067. L13a-mediated translational silencing of Ceruloplasmin expression.
REACT_307259. Formation of a pool of free 40S subunits.
REACT_314339. SRP-dependent cotranslational protein targeting to membrane.
REACT_332565. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
REACT_343353. Peptide chain elongation.
REACT_346847. GTP hydrolysis and joining of the 60S ribosomal subunit.

Names & Taxonomyi

Protein namesi
Recommended name:
60S ribosomal protein L39
Alternative name(s):
L46
YL40
Gene namesi
Name:RPL39
Synonyms:RPL46, SPB2
Ordered Locus Names:YJL189W
ORF Names:J0360
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome X

Organism-specific databases

EuPathDBiFungiDB:YJL189W.
SGDiS000003725. RPL39.

Subcellular locationi

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 515060S ribosomal protein L39PRO_0000127044Add
BLAST

Proteomic databases

PaxDbiP04650.
PeptideAtlasiP04650.

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

Protein-protein interaction databases

BioGridi33574. 25 interactions.
DIPiDIP-4522N.
IntActiP04650. 8 interactions.
MINTiMINT-8285272.
STRINGi4932.YJL189W.

Structurei

Secondary structure

1
51
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi7 – 1812Combined sources
Helixi25 – 295Combined sources
Turni44 – 463Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2WW9electron microscopy8.60O1-51[»]
2WWAelectron microscopy8.90O1-51[»]
2WWBelectron microscopy6.48O1-51[»]
3J6Xelectron microscopy6.10791-51[»]
3J6Yelectron microscopy6.10791-51[»]
3J77electron microscopy6.20891-51[»]
3J78electron microscopy6.30891-51[»]
4U3MX-ray3.00O9/o92-51[»]
4U3NX-ray3.20O9/o92-51[»]
4U3UX-ray2.90O9/o92-51[»]
4U4NX-ray3.10O9/o92-51[»]
4U4OX-ray3.60O9/o92-51[»]
4U4QX-ray3.00O9/o92-51[»]
4U4RX-ray2.80O9/o92-51[»]
4U4UX-ray3.00O9/o92-51[»]
4U4YX-ray3.20O9/o92-51[»]
4U4ZX-ray3.10O9/o92-51[»]
4U50X-ray3.20O9/o92-51[»]
4U51X-ray3.20O9/o92-51[»]
4U52X-ray3.00O9/o92-51[»]
4U53X-ray3.30O9/o92-51[»]
4U55X-ray3.20O9/o92-51[»]
4U56X-ray3.45O9/o92-51[»]
4U6FX-ray3.10O9/o92-51[»]
4V6Ielectron microscopy8.80Bo1-51[»]
4V7Felectron microscopy8.70j1-51[»]
4V7RX-ray4.00Be/De1-51[»]
4V88X-ray3.00Bl/Dl1-51[»]
4V8Telectron microscopy8.10l1-51[»]
4V8Yelectron microscopy4.30Bl2-51[»]
4V8Zelectron microscopy6.60Bl2-51[»]
4V91electron microscopy3.70l1-51[»]
ProteinModelPortaliP04650.
SMRiP04650. Positions 1-37.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP04650.

Family & Domainsi

Sequence similaritiesi

Belongs to the ribosomal protein L39e family.Curated

Phylogenomic databases

eggNOGiCOG2167.
GeneTreeiENSGT00390000014814.
HOGENOMiHOG000230627.
InParanoidiP04650.
KOiK02924.
OrthoDBiEOG7HMSDR.

Family and domain databases

Gene3Di1.10.1620.10. 1 hit.
HAMAPiMF_00629. Ribosomal_L39e.
InterProiIPR000077. Ribosomal_L39.
IPR020083. Ribosomal_L39_CS.
IPR023626. Ribosomal_L39e_dom.
[Graphical view]
PANTHERiPTHR19970. PTHR19970. 1 hit.
PfamiPF00832. Ribosomal_L39. 1 hit.
[Graphical view]
SUPFAMiSSF48662. SSF48662. 1 hit.
PROSITEiPS00051. RIBOSOMAL_L39E. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

P04650-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAAQKSFRIK QKMAKAKKQN RPLPQWIRLR TNNTIRYNAK RRNWRRTKMN

I
Length:51
Mass (Da):6,342
Last modified:January 23, 2007 - v3
Checksum:iFE518D8B3949C163
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X01963 Genomic DNA. Translation: CAA25999.1.
Z49464 Genomic DNA. Translation: CAA89483.1.
BK006943 Genomic DNA. Translation: DAA08618.1.
PIRiB23082. R6BY46.
RefSeqiNP_012346.1. NM_001181622.1.

Genome annotation databases

EnsemblFungiiYJL189W; YJL189W; YJL189W.
GeneIDi853250.
KEGGisce:YJL189W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X01963 Genomic DNA. Translation: CAA25999.1.
Z49464 Genomic DNA. Translation: CAA89483.1.
BK006943 Genomic DNA. Translation: DAA08618.1.
PIRiB23082. R6BY46.
RefSeqiNP_012346.1. NM_001181622.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2WW9electron microscopy8.60O1-51[»]
2WWAelectron microscopy8.90O1-51[»]
2WWBelectron microscopy6.48O1-51[»]
3J6Xelectron microscopy6.10791-51[»]
3J6Yelectron microscopy6.10791-51[»]
3J77electron microscopy6.20891-51[»]
3J78electron microscopy6.30891-51[»]
4U3MX-ray3.00O9/o92-51[»]
4U3NX-ray3.20O9/o92-51[»]
4U3UX-ray2.90O9/o92-51[»]
4U4NX-ray3.10O9/o92-51[»]
4U4OX-ray3.60O9/o92-51[»]
4U4QX-ray3.00O9/o92-51[»]
4U4RX-ray2.80O9/o92-51[»]
4U4UX-ray3.00O9/o92-51[»]
4U4YX-ray3.20O9/o92-51[»]
4U4ZX-ray3.10O9/o92-51[»]
4U50X-ray3.20O9/o92-51[»]
4U51X-ray3.20O9/o92-51[»]
4U52X-ray3.00O9/o92-51[»]
4U53X-ray3.30O9/o92-51[»]
4U55X-ray3.20O9/o92-51[»]
4U56X-ray3.45O9/o92-51[»]
4U6FX-ray3.10O9/o92-51[»]
4V6Ielectron microscopy8.80Bo1-51[»]
4V7Felectron microscopy8.70j1-51[»]
4V7RX-ray4.00Be/De1-51[»]
4V88X-ray3.00Bl/Dl1-51[»]
4V8Telectron microscopy8.10l1-51[»]
4V8Yelectron microscopy4.30Bl2-51[»]
4V8Zelectron microscopy6.60Bl2-51[»]
4V91electron microscopy3.70l1-51[»]
ProteinModelPortaliP04650.
SMRiP04650. Positions 1-37.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33574. 25 interactions.
DIPiDIP-4522N.
IntActiP04650. 8 interactions.
MINTiMINT-8285272.
STRINGi4932.YJL189W.

Proteomic databases

PaxDbiP04650.
PeptideAtlasiP04650.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYJL189W; YJL189W; YJL189W.
GeneIDi853250.
KEGGisce:YJL189W.

Organism-specific databases

EuPathDBiFungiDB:YJL189W.
SGDiS000003725. RPL39.

Phylogenomic databases

eggNOGiCOG2167.
GeneTreeiENSGT00390000014814.
HOGENOMiHOG000230627.
InParanoidiP04650.
KOiK02924.
OrthoDBiEOG7HMSDR.

Enzyme and pathway databases

BioCyciYEAST:G3O-31621-MONOMER.
ReactomeiREACT_290856. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).
REACT_302067. L13a-mediated translational silencing of Ceruloplasmin expression.
REACT_307259. Formation of a pool of free 40S subunits.
REACT_314339. SRP-dependent cotranslational protein targeting to membrane.
REACT_332565. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
REACT_343353. Peptide chain elongation.
REACT_346847. GTP hydrolysis and joining of the 60S ribosomal subunit.

Miscellaneous databases

EvolutionaryTraceiP04650.
NextBioi973493.
PROiP04650.

Family and domain databases

Gene3Di1.10.1620.10. 1 hit.
HAMAPiMF_00629. Ribosomal_L39e.
InterProiIPR000077. Ribosomal_L39.
IPR020083. Ribosomal_L39_CS.
IPR023626. Ribosomal_L39e_dom.
[Graphical view]
PANTHERiPTHR19970. PTHR19970. 1 hit.
PfamiPF00832. Ribosomal_L39. 1 hit.
[Graphical view]
SUPFAMiSSF48662. SSF48662. 1 hit.
PROSITEiPS00051. RIBOSOMAL_L39E. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The genes for yeast ribosomal proteins S24 and L46 are adjacent and divergently transcribed."
    Leer R.J., van Raamsdonk-Duin M.M.C., Kraakman P., Mager W.H., Planta R.J.
    Nucleic Acids Res. 13:701-709(1985) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X."
    Galibert F., Alexandraki D., Baur A., Boles E., Chalwatzis N., Chuat J.-C., Coster F., Cziepluch C., de Haan M., Domdey H., Durand P., Entian K.-D., Gatius M., Goffeau A., Grivell L.A., Hennemann A., Herbert C.J., Heumann K.
    , Hilger F., Hollenberg C.P., Huang M.-E., Jacq C., Jauniaux J.-C., Katsoulou C., Kirchrath L., Kleine K., Kordes E., Koetter P., Liebl S., Louis E.J., Manus V., Mewes H.-W., Miosga T., Obermaier B., Perea J., Pohl T.M., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rasmussen S.W., Rose M., Rossau R., Schaaff-Gerstenschlaeger I., Smits P.H.M., Scarcez T., Soriano N., To Van D., Tzermia M., Van Broekhoven A., Vandenbol M., Wedler H., von Wettstein D., Wambutt R., Zagulski M., Zollner A., Karpfinger-Hartl L.
    EMBO J. 15:2031-2049(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. "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.
  5. "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] [Europe PMC] [Abstract]
    Cited for: CLEAVAGE OF INITIATOR METHIONINE.
  6. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  7. "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.
  8. Cited for: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS) OF 80S RIBOSOME.

Entry informationi

Entry nameiRL39_YEAST
AccessioniPrimary (citable) accession number: P04650
Secondary accession number(s): D6VW02
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 13, 1987
Last sequence update: January 23, 2007
Last modified: June 24, 2015
This is version 122 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, 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 X
    Yeast (Saccharomyces cerevisiae) chromosome X: entries and gene names

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.