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Q9RXK2

- RL3_DEIRA

UniProt

Q9RXK2 - RL3_DEIRA

Protein

50S ribosomal protein L3

Gene

rplC

Organism
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
Status
Reviewed - Annotation score: 2 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 89 (01 Oct 2014)
      Sequence version 1 (01 May 2000)
      Previous versions | rss
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    Functioni

    One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.By similarity

    GO - Molecular functioni

    1. rRNA binding Source: UniProtKB-HAMAP
    2. structural constituent of ribosome Source: InterPro

    GO - Biological processi

    1. translation Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Ribonucleoprotein, Ribosomal protein

    Keywords - Ligandi

    RNA-binding, rRNA-binding

    Enzyme and pathway databases

    BioCyciDRAD243230:GH46-321-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    50S ribosomal protein L3
    Gene namesi
    Name:rplC
    Ordered Locus Names:DR_0311
    OrganismiDeinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
    Taxonomic identifieri243230 [NCBI]
    Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciDeinococcalesDeinococcaceaeDeinococcus
    ProteomesiUP000002524: Chromosome I

    Subcellular locationi

    GO - Cellular componenti

    1. ribosome Source: UniProtKB-KW

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 21121150S ribosomal protein L3PRO_0000077097Add
    BLAST

    Proteomic databases

    PRIDEiQ9RXK2.

    Interactioni

    Subunit structurei

    Part of the 50S ribosomal subunit. Forms a cluster with proteins L14 and L19. Also contacts proteins L13 and L17.6 Publications

    Protein-protein interaction databases

    STRINGi243230.DR_0311.

    Structurei

    Secondary structure

    1
    211
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi3 – 1614
    Beta strandi19 – 279
    Beta strandi31 – 377
    Turni39 – 413
    Beta strandi42 – 443
    Beta strandi46 – 505
    Helixi56 – 583
    Helixi61 – 688
    Turni69 – 713
    Beta strandi78 – 814
    Beta strandi87 – 904
    Turni93 – 953
    Beta strandi101 – 1077
    Beta strandi110 – 1145
    Helixi116 – 1205
    Beta strandi127 – 1304
    Beta strandi132 – 1354
    Beta strandi144 – 1474
    Beta strandi158 – 1614
    Beta strandi164 – 17613
    Turni177 – 1804
    Beta strandi181 – 1866
    Beta strandi195 – 2006

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1NKWX-ray3.10B1-211[»]
    1NWXX-ray3.50B1-211[»]
    1NWYX-ray3.30B1-211[»]
    1PNUX-ray8.70B1-205[»]
    1PNYX-ray9.50B1-205[»]
    1SM1X-ray3.42B1-211[»]
    1VOWX-ray11.50E1-205[»]
    1VOYX-ray11.50E1-205[»]
    1VP0X-ray11.50E1-205[»]
    1XBPX-ray3.50B1-211[»]
    2OGMX-ray3.50B1-211[»]
    2OGNX-ray3.56B1-211[»]
    2OGOX-ray3.66B1-211[»]
    2ZJPX-ray3.70B1-211[»]
    2ZJQX-ray3.30B1-211[»]
    2ZJRX-ray2.91B1-211[»]
    3CF5X-ray3.30B1-211[»]
    3DLLX-ray3.50B1-211[»]
    3PIOX-ray3.25B1-211[»]
    3PIPX-ray3.45B1-211[»]
    4IO9X-ray3.20B1-211[»]
    4IOAX-ray3.20B1-211[»]
    4IOCX-ray3.60B1-211[»]
    ProteinModelPortaliQ9RXK2.
    SMRiQ9RXK2. Positions 1-205.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ9RXK2.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the ribosomal protein L3P family.Curated

    Phylogenomic databases

    eggNOGiCOG0087.
    HOGENOMiHOG000100368.
    KOiK02906.
    OMAiSMQDATH.
    OrthoDBiEOG6WDSMH.

    Family and domain databases

    HAMAPiMF_01325_B. Ribosomal_L3_B.
    InterProiIPR000597. Ribosomal_L3.
    IPR019927. Ribosomal_L3_bac/org-type.
    IPR019926. Ribosomal_L3_CS.
    IPR009000. Transl_B-barrel.
    [Graphical view]
    PANTHERiPTHR11229. PTHR11229. 1 hit.
    PfamiPF00297. Ribosomal_L3. 1 hit.
    [Graphical view]
    SUPFAMiSSF50447. SSF50447. 1 hit.
    TIGRFAMsiTIGR03625. L3_bact. 1 hit.
    PROSITEiPS00474. RIBOSOMAL_L3. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q9RXK2-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKGILGTKIG MTQIWKNDRA IPVTVVLAGP CPIVQRKTAQ TDGYEAVQIG    50
    YAPKAERKVN KPMQGHFAKA GVAPTRILRE FRGFAPDGDS VNVDIFAEGE 100
    KIDATGTSKG KGTQGVMKRW NFAGGPASHG SKKWHRRPGS IGQRKTPGRV 150
    YKGKRMAGHM GMERVTVQNL EVVEIRAGEN LILVKGAIPG ANGGLVVLRS 200
    AAKASAAKGG K 211
    Length:211
    Mass (Da):22,437
    Last modified:May 1, 2000 - v1
    Checksum:i04D0EE53A6276CE4
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000513 Genomic DNA. Translation: AAF09892.1.
    PIRiG75533.
    RefSeqiNP_294034.1. NC_001263.1.
    WP_010886956.1. NC_001263.1.

    Genome annotation databases

    EnsemblBacteriaiAAF09892; AAF09892; DR_0311.
    GeneIDi1799285.
    KEGGidra:DR_0311.
    PATRICi21628120. VBIDeiRad64572_0477.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000513 Genomic DNA. Translation: AAF09892.1 .
    PIRi G75533.
    RefSeqi NP_294034.1. NC_001263.1.
    WP_010886956.1. NC_001263.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1NKW X-ray 3.10 B 1-211 [» ]
    1NWX X-ray 3.50 B 1-211 [» ]
    1NWY X-ray 3.30 B 1-211 [» ]
    1PNU X-ray 8.70 B 1-205 [» ]
    1PNY X-ray 9.50 B 1-205 [» ]
    1SM1 X-ray 3.42 B 1-211 [» ]
    1VOW X-ray 11.50 E 1-205 [» ]
    1VOY X-ray 11.50 E 1-205 [» ]
    1VP0 X-ray 11.50 E 1-205 [» ]
    1XBP X-ray 3.50 B 1-211 [» ]
    2OGM X-ray 3.50 B 1-211 [» ]
    2OGN X-ray 3.56 B 1-211 [» ]
    2OGO X-ray 3.66 B 1-211 [» ]
    2ZJP X-ray 3.70 B 1-211 [» ]
    2ZJQ X-ray 3.30 B 1-211 [» ]
    2ZJR X-ray 2.91 B 1-211 [» ]
    3CF5 X-ray 3.30 B 1-211 [» ]
    3DLL X-ray 3.50 B 1-211 [» ]
    3PIO X-ray 3.25 B 1-211 [» ]
    3PIP X-ray 3.45 B 1-211 [» ]
    4IO9 X-ray 3.20 B 1-211 [» ]
    4IOA X-ray 3.20 B 1-211 [» ]
    4IOC X-ray 3.60 B 1-211 [» ]
    ProteinModelPortali Q9RXK2.
    SMRi Q9RXK2. Positions 1-205.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 243230.DR_0311.

    Proteomic databases

    PRIDEi Q9RXK2.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAF09892 ; AAF09892 ; DR_0311 .
    GeneIDi 1799285.
    KEGGi dra:DR_0311.
    PATRICi 21628120. VBIDeiRad64572_0477.

    Phylogenomic databases

    eggNOGi COG0087.
    HOGENOMi HOG000100368.
    KOi K02906.
    OMAi SMQDATH.
    OrthoDBi EOG6WDSMH.

    Enzyme and pathway databases

    BioCyci DRAD243230:GH46-321-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei Q9RXK2.

    Family and domain databases

    HAMAPi MF_01325_B. Ribosomal_L3_B.
    InterProi IPR000597. Ribosomal_L3.
    IPR019927. Ribosomal_L3_bac/org-type.
    IPR019926. Ribosomal_L3_CS.
    IPR009000. Transl_B-barrel.
    [Graphical view ]
    PANTHERi PTHR11229. PTHR11229. 1 hit.
    Pfami PF00297. Ribosomal_L3. 1 hit.
    [Graphical view ]
    SUPFAMi SSF50447. SSF50447. 1 hit.
    TIGRFAMsi TIGR03625. L3_bact. 1 hit.
    PROSITEi PS00474. RIBOSOMAL_L3. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
    2. "High resolution structure of the large ribosomal subunit from a mesophilic eubacterium."
      Harms J., Schluenzen F., Zarivach R., Bashan A., Gat S., Agmon I., Bartels H., Franceschi F., Yonath A.
      Cell 107:679-688(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS) OF THE 50S SUBUNIT, PROTEIN SEQUENCE OF 1-5.
      Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
    3. "Structural basis for the interaction of antibiotics with the peptidyl transferase centre in eubacteria."
      Schluenzen F., Zarivach R., Harms J., Bashan A., Tocilj A., Albrecht R., Yonath A., Franceschi F.
      Nature 413:814-821(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH FIVE ANTIBIOTICS.
      Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
    4. "Structural basis of the ribosomal machinery for peptide bond formation, translocation, and nascent chain progression."
      Bashan A., Agmon I., Zarivach R., Schluenzen F., Harms J., Berisio R., Bartels H., Franceschi F., Auerbach T., Hansen H.A., Kossoy E., Kessler M., Yonath A.
      Mol. Cell 11:91-102(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (3.5 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH TRNA MIMICS.
      Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
    5. "Structural basis for the antibiotic activity of ketolides and azalides."
      Schluenzen F., Harms J.M., Franceschi F., Hansen H.A., Bartels H., Zarivach R., Yonath A.
      Structure 11:329-338(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (3.3 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH MODIFIED MACROLIDE ANTIBIOTICS.
      Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
    6. "Structural insight into the role of the ribosomal tunnel in cellular regulation."
      Berisio R., Schluenzen F., Harms J., Bashan A., Auerbach T., Baram D., Yonath A.
      Nat. Struct. Biol. 10:366-370(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (3.4 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH TROLEANDOMYCIN.
      Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
    7. "Alterations at the peptidyl transferase centre of the ribosome induced by the synergistic action of the streptogramins dalfopristin and quinupristin."
      Harms J.M., Schluenzen F., Fucini P., Bartels H., Yonath A.
      BMC Biol. 2:4-4(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (3.4 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH THE STREPTOGRAMINS QUINUPRISTIN AND DALFOPRISTIN.
      Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.
    8. "Inhibition of peptide bond formation by pleuromutilins: the structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with tiamulin."
      Schluenzen F., Pyetan E., Fucini P., Yonath A., Harms J.M.
      Mol. Microbiol. 54:1287-1294(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (3.5 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH TIAMULIN.
      Strain: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422.

    Entry informationi

    Entry nameiRL3_DEIRA
    AccessioniPrimary (citable) accession number: Q9RXK2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 16, 2004
    Last sequence update: May 1, 2000
    Last modified: October 1, 2014
    This is version 89 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    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

    External Data

    Dasty 3