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RCSB PDB - 1FKA: STRUCTURE OF FUNCTIONALLY ACTIVATED SMALL RIBOSOMAL SUBUNIT AT 3.3 A RESOLUTION

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STRUCTURE OF FUNCTIONALLY ACTIVATED SMALL RIBOSOMAL SUBUNIT AT 3.3 A RESOLUTION



    This is version 1.3 of the entry. See complete history. 



    Structure of functionally activated small ribosomal subunit at 3.3 angstroms resolution.

    Schluenzen, F., Tocilj, A., Zarivach, R., Harms, J., Gluehmann, M., Janell, D., Bashan, A., Bartels, H., Agmon, I., Franceschi, F., Yonath, A.

    (2000) Cell 102: 615-623

    • PubMed: 11007480 Search on PubMed
    • DOI: https://doi.org/10.1016/s0092-8674(00)00084-2

    • PubMed Abstract: 

      The small ribosomal subunit performs the decoding of genetic information during translation. The structure of that from Thermus thermophilus shows that the decoding center, which positions mRNA and three tRNAs, is constructed entirely of RNA. The entrance to the mRNA channel will encircle the message when a latch-like contact closes and contributes to processivity and fidelity. Extended RNA helical elements that run longitudinally through the body transmit structural changes, correlating events at the particle's far end with the cycle of mRNA translocation at the decoding region. 96% of the nucleotides were traced and the main fold of all proteins was determined. The latter are either peripheral or appear to serve as linkers. Some may assist the directionality of translocation.

      • Organizational Affiliation: 

      Max-Planck-Research Unit for Ribosomal Structure, Hamburg, Germany.

    Macromolecule Content

    • Total Structure Weight: 725.01 kDa 
    • Atom Count: 34,977 
    • Modelled Residue Count: 3,343 
    • Deposited Residue Count: 3,524 
    • Unique protein chains: 19
    • Unique nucleic acid chains: 1


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    Entity ID: 2
    MoleculeChains Sequence LengthOrganismDetailsImage
    30S RIBOSOMAL PROTEIN S2111Thermus thermophilusMutation(s): 0 
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    Entity ID: 3
    MoleculeChains Sequence LengthOrganismDetailsImage
    30S RIBOSOMAL PROTEIN S3176Thermus thermophilusMutation(s): 0 
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    Entity ID: 9
    MoleculeChains Sequence LengthOrganismDetailsImage
    30S RIBOSOMAL PROTEIN S989Thermus thermophilusMutation(s): 0 
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    Entity ID: 10
    MoleculeChains Sequence LengthOrganismDetailsImage
    30S RIBOSOMAL PROTEIN S1071Thermus thermophilusMutation(s): 0 
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    Entity ID: 11
    MoleculeChains Sequence LengthOrganismDetailsImage
    30S RIBOSOMAL PROTEIN S1170Thermus thermophilusMutation(s): 0 
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    Entity ID: 12
    MoleculeChains Sequence LengthOrganismDetailsImage
    30S RIBOSOMAL PROTEIN S12103Thermus thermophilusMutation(s): 0 
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    Entity ID: 13
    MoleculeChains Sequence LengthOrganismDetailsImage
    30S RIBOSOMAL PROTEIN S1377Thermus thermophilusMutation(s): 0 
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    Entity ID: 14
    MoleculeChains Sequence LengthOrganismDetailsImage
    30S RIBOSOMAL PROTEIN S1426Thermus thermophilusMutation(s): 0 
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    Entity ID: 16
    MoleculeChains Sequence LengthOrganismDetailsImage
    30S RIBOSOMAL PROTEIN S1673Thermus thermophilusMutation(s): 0 
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    Entity ID: 17
    MoleculeChains Sequence LengthOrganismDetailsImage
    30S RIBOSOMAL PROTEIN S1784Thermus thermophilusMutation(s): 0 
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    Entity ID: 20
    MoleculeChains Sequence LengthOrganismDetailsImage
    30S RIBOSOMAL PROTEIN S2095Thermus thermophilusMutation(s): 0 
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    Ligands 1 Unique
    IDChains Name / Formula / InChI Key2D Diagram3D Interactions
    WO2
    Query on WO2
    Download Ideal Coordinates CCD File 

    AA [auth R]
    U [auth A]
    V [auth A]
    W [auth C]
    X [auth G]

    AA [auth R],
    U [auth A],
    V [auth A],
    W [auth C],
    X [auth G],
    Y [auth H],
    Z [auth K]

    		OCTADECATUNGSTENYL DIPHOSPHATE
    O62 P2 W18
    WXCYUHHUPKCTBX-UHFFFAOYSA-A

    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 3.30 Å
    • R-Value Free:  0.305 (Depositor) 
    • R-Value Work:  0.304 (Depositor) 

    Unit Cell:

    Length ( Å )Angle ( ˚ )
    a = 406.3α = 90
    b = 406.3β = 90
    c = 173.1γ = 90

    Software Package:

    Software NamePurpose
    SHARPphasing
    CNSrefinement
    DENZOdata reduction
    SCALEPACKdata scaling

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 2000-09-04
      Type: Initial release
    • Version 1.1: 2008-04-27
      Changes: Version format compliance
    • Version 1.2: 2011-07-13
      Changes: Version format compliance
    • Version 1.3: 2024-02-07
      Changes: Data collection, Database references