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P04650

- RL39_YEAST

UniProt

P04650 - RL39_YEAST

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
  1. Functioni

    GO - Molecular functioni

    1. structural constituent of ribosome Source: SGD

    GO - Biological processi

    1. cytoplasmic translation Source: SGD

    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

    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[»]
    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.
    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

    MAAQKSFRIK QKMAKAKKQN RPLPQWIRLR TNNTIRYNAK RRNWRRTKMN   50
    I 51
    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 [» ]
    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.
    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

    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 1, 2014
    This is version 113 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