5GAE

RNC in complex with a translocating SecYEG

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.33 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

Structures of the E. coli translating ribosome with SRP and its receptor and with the translocon.

Jomaa, A., Boehringer, D., Leibundgut, M., Ban, N.

(2016) Nat Commun 7: 10471-10471

  • DOI: 10.1038/ncomms10471
  • Primary Citation of Related Structures:  
    5GAH, 5GAG, 5GAD, 5GAF, 5GAE

  • PubMed Abstract: 

    • Co-translational protein targeting to membranes is a universally conserved process. Central steps include cargo recognition by the signal recognition particle and handover to the Sec translocon. Here we present snapshots of key co-translational-targeting complexes solved by cryo-electron microscopy at near-atomic resolution, establishing the molecular contacts between the Escherichia coli translating ribosome, the signal recognition particle and the translocon ...

    Co-translational protein targeting to membranes is a universally conserved process. Central steps include cargo recognition by the signal recognition particle and handover to the Sec translocon. Here we present snapshots of key co-translational-targeting complexes solved by cryo-electron microscopy at near-atomic resolution, establishing the molecular contacts between the Escherichia coli translating ribosome, the signal recognition particle and the translocon. Our results reveal the conformational changes that regulate the latching of the signal sequence, the release of the heterodimeric domains of the signal recognition particle and its receptor, and the handover of the signal sequence to the translocon. We also observe that the signal recognition particle and the translocon insert-specific structural elements into the ribosomal tunnel to remodel it, possibly to sense nascent chains. Our work provides structural evidence for a conformational state of the signal recognition particle and its receptor primed for translocon binding to the ribosome-nascent chain complex.

    Organizational Affiliation: 

    Department of Biology, Institute of Molecular Biology and Biophysics, Otto-Stern-Weg 5, ETH Zurich CH-8093, Switzerland.



Macromolecules

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Entity ID: 3
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50S ribosomal protein L2 C273Escherichia coliMutation(s): 0 
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Entity ID: 4
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50S ribosomal protein L3 D209Escherichia coliMutation(s): 0 
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Entity ID: 5
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50S ribosomal protein L4 E201Escherichia coliMutation(s): 0 
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Entity ID: 6
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50S ribosomal protein L5 F179Escherichia coliMutation(s): 0 
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Entity ID: 7
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50S ribosomal protein L6 G177Escherichia coliMutation(s): 0 
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Entity ID: 8
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50S ribosomal protein L9 H149Escherichia coliMutation(s): 0 
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Entity ID: 9
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50S ribosomal protein L10 I165Escherichia coliMutation(s): 0 
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Entity ID: 10
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50S ribosomal protein L11 J142Escherichia coliMutation(s): 0 
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Entity ID: 11
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50S ribosomal protein L13 K142Escherichia coliMutation(s): 0 
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Entity ID: 12
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50S ribosomal protein L14 L123Escherichia coliMutation(s): 0 
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Entity ID: 13
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50S ribosomal protein L15 M144Escherichia coliMutation(s): 0 
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Entity ID: 14
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50S ribosomal protein L16 N136Escherichia coliMutation(s): 0 
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Entity ID: 15
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50S ribosomal protein L17 O127Escherichia coliMutation(s): 0 
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Entity ID: 16
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50S ribosomal protein L18 P117Escherichia coliMutation(s): 0 
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Entity ID: 17
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50S ribosomal protein L19 Q115Escherichia coliMutation(s): 0 
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Entity ID: 18
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50S ribosomal protein L20 R118Escherichia coliMutation(s): 0 
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Entity ID: 19
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50S ribosomal protein L21 S103Escherichia coliMutation(s): 0 
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Entity ID: 20
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50S ribosomal protein L22 T110Escherichia coliMutation(s): 0 
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Entity ID: 21
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50S ribosomal protein L23 U100Escherichia coliMutation(s): 0 
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Entity ID: 22
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50S ribosomal protein L24 V104Escherichia coliMutation(s): 0 
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Entity ID: 23
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50S ribosomal protein L25 W94Escherichia coliMutation(s): 0 
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Entity ID: 24
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50S ribosomal protein L27 X85Escherichia coliMutation(s): 0 
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Entity ID: 25
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50S ribosomal protein L28 Y78Escherichia coliMutation(s): 0 
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Entity ID: 26
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50S ribosomal protein L29 Z63Escherichia coliMutation(s): 0 
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Entity ID: 27
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50S ribosomal protein L30 a59Escherichia coliMutation(s): 0 
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Entity ID: 28
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50S ribosomal protein L32 b57Escherichia coliMutation(s): 0 
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Entity ID: 29
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50S ribosomal protein L33 c55Escherichia coliMutation(s): 0 
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Entity ID: 30
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50S ribosomal protein L34 d46Escherichia coliMutation(s): 0 
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Entity ID: 31
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50S ribosomal protein L35 e65Escherichia coliMutation(s): 0 
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Entity ID: 32
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50S ribosomal protein L36 f38Escherichia coliMutation(s): 0 
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Entity ID: 33
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Protein translocase subunit SecY g443Escherichia coliMutation(s): 0 
Find proteins for P0AGA2 (Escherichia coli (strain K12))
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Entity ID: 34
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Protein translocase subunit SecE h127Escherichia coliMutation(s): 0 
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Entity ID: 35
MoleculeChainsSequence LengthOrganismDetailsImage
SecG i25Escherichia coliMutation(s): 0 
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Entity ID: 1
MoleculeChainsLengthOrganismImage
23S rRNAA2903Escherichia coli
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Entity ID: 2
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5S rRNAB120Escherichia coli
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    • Entity ID: 36
    MoleculeChainsLengthOrganismImage
    tRNA CCA end (5'-R(P*CP*CP*A)-3')x3Escherichia coli
    Small Molecules
    Ligands 2 Unique
    IDChainsName / Formula / InChI Key2D Diagram3D Interactions
    ZN
    Query on ZN
    Download Ideal Coordinates CCD File 
    f
    		ZINC ION
    Zn
    PTFCDOFLOPIGGS-UHFFFAOYSA-N    		 Ligand Interaction
    MG
    Query on MG
    Download Ideal Coordinates CCD File 
    A, B, R, b
    		MAGNESIUM ION
    Mg
    JLVVSXFLKOJNIY-UHFFFAOYSA-N    		 Ligand Interaction
    Experimental Data & Validation

    Experimental Data

    • Method: ELECTRON MICROSCOPY
    • Resolution: 3.33 Å
    • Aggregation State: PARTICLE 
    • Reconstruction Method: SINGLE PARTICLE 

    Structure Validation

    View Full Validation Report


    View more in-depth experimental data

    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 2016-01-27
      Type: Initial release
    • Version 1.1: 2016-02-03
      Changes: Database references
    • Version 1.2: 2019-12-11
      Changes: Data collection, Other