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P04650

- RL39_YEAST

UniProt

P04650 - RL39_YEAST

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Protein

60S ribosomal protein L39

Gene

RPL39

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 3 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
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal protein

Enzyme and pathway databases

BioCyciYEAST:G3O-31621-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.

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: Chromosome X

Organism-specific databases

SGDiS000003725. RPL39.

Subcellular locationi

Cytoplasm By similarity

GO - Cellular componenti

  1. 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.

Expressioni

Gene expression databases

GenevestigatoriP04650.

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

Structurei

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1VW8electron microscopy6.10m1-51[»]
1VWUelectron microscopy6.10m1-51[»]
1VXVelectron microscopy6.20m1-51[»]
1VXYelectron microscopy6.30m1-51[»]
2WW9electron microscopy8.60O1-51[»]
2WWAelectron microscopy8.90O1-51[»]
2WWBelectron microscopy6.48O1-51[»]
3IZSelectron microscopy-o1-51[»]
3J65electron microscopy8.70j1-51[»]
3O58X-ray4.00e1-51[»]
3O5HX-ray4.00e1-51[»]
3U5EX-ray3.00l1-51[»]
3U5IX-ray3.00l1-51[»]
4B6Aelectron microscopy8.10l1-51[»]
4BYNelectron microscopy4.30l2-51[»]
4BYUelectron microscopy6.60l2-51[»]
4CUWelectron microscopy3.70l1-51[»]
ProteinModelPortaliP04650.
SMRiP04650. Positions 2-51.
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:
EMBL
GenBank
DDBJ
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:
EMBL
GenBank
DDBJ
Links Updated
X01963 Genomic DNA. Translation: CAA25999.1 .
Z49464 Genomic DNA. Translation: CAA89483.1 .
BK006943 Genomic DNA. Translation: DAA08618.1 .
PIRi B23082. R6BY46.
RefSeqi NP_012346.1. NM_001181622.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1VW8 electron microscopy 6.10 m 1-51 [» ]
1VWU electron microscopy 6.10 m 1-51 [» ]
1VXV electron microscopy 6.20 m 1-51 [» ]
1VXY electron microscopy 6.30 m 1-51 [» ]
2WW9 electron microscopy 8.60 O 1-51 [» ]
2WWA electron microscopy 8.90 O 1-51 [» ]
2WWB electron microscopy 6.48 O 1-51 [» ]
3IZS electron microscopy - o 1-51 [» ]
3J65 electron microscopy 8.70 j 1-51 [» ]
3O58 X-ray 4.00 e 1-51 [» ]
3O5H X-ray 4.00 e 1-51 [» ]
3U5E X-ray 3.00 l 1-51 [» ]
3U5I X-ray 3.00 l 1-51 [» ]
4B6A electron microscopy 8.10 l 1-51 [» ]
4BYN electron microscopy 4.30 l 2-51 [» ]
4BYU electron microscopy 6.60 l 2-51 [» ]
4CUW electron microscopy 3.70 l 1-51 [» ]
ProteinModelPortali P04650.
SMRi P04650. Positions 2-51.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 33574. 24 interactions.
DIPi DIP-4522N.
IntActi P04650. 8 interactions.
MINTi MINT-8285272.
STRINGi 4932.YJL189W.

Proteomic databases

PaxDbi P04650.
PeptideAtlasi P04650.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YJL189W ; YJL189W ; YJL189W .
GeneIDi 853250.
KEGGi sce:YJL189W.

Organism-specific databases

SGDi S000003725. RPL39.

Phylogenomic databases

eggNOGi COG2167.
GeneTreei ENSGT00390000014814.
HOGENOMi HOG000230627.
InParanoidi P04650.
KOi K02924.
OrthoDBi EOG7HMSDR.

Enzyme and pathway databases

BioCyci YEAST:G3O-31621-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.

Miscellaneous databases

EvolutionaryTracei P04650.
NextBioi 973493.
PROi P04650.

Gene expression databases

Genevestigatori P04650.

Family and domain databases

Gene3Di 1.10.1620.10. 1 hit.
HAMAPi MF_00629. Ribosomal_L39e.
InterProi IPR000077. Ribosomal_L39.
IPR020083. Ribosomal_L39_CS.
IPR023626. Ribosomal_L39e_dom.
[Graphical view ]
PANTHERi PTHR19970. PTHR19970. 1 hit.
Pfami PF00832. Ribosomal_L39. 1 hit.
[Graphical view ]
SUPFAMi SSF48662. SSF48662. 1 hit.
PROSITEi PS00051. RIBOSOMAL_L39E. 1 hit.
[Graphical view ]
ProtoNeti Search...

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: October 29, 2014
This is version 114 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