5MG3

EM fitted model of bacterial holo-translocon

  • Classification: CHAPERONE
  • Organism(s): Escherichia coli
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2016-11-20 Released: 2016-12-28 
  • Deposition Author(s): Schaffitzel, C., Botte, M.
  • Funding Organization(s): Baden-Wurttemberg Stiftung, French National Research Agency, Biotechnology and Biological Sciences Research Council

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 14.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

A central cavity within the holo-translocon suggests a mechanism for membrane protein insertion.

Botte, M.Zaccai, N.R.Nijeholt, J.L.Martin, R.Knoops, K.Papai, G.Zou, J.Deniaud, A.Karuppasamy, M.Jiang, Q.Roy, A.S.Schulten, K.Schultz, P.Rappsilber, J.Zaccai, G.Berger, I.Collinson, I.Schaffitzel, C.

(2016) Sci Rep 6: 38399-38399

  • DOI: 10.1038/srep38399
  • Primary Citation of Related Structures:  
    5MG3

  • PubMed Abstract: 
  • The conserved SecYEG protein-conducting channel and the accessory proteins SecDF-YajC and YidC constitute the bacterial holo-translocon (HTL), capable of protein-secretion and membrane-protein insertion. By employing an integrative approach combining ...

    The conserved SecYEG protein-conducting channel and the accessory proteins SecDF-YajC and YidC constitute the bacterial holo-translocon (HTL), capable of protein-secretion and membrane-protein insertion. By employing an integrative approach combining small-angle neutron scattering (SANS), low-resolution electron microscopy and biophysical analyses we determined the arrangement of the proteins and lipids within the super-complex. The results guided the placement of X-ray structures of individual HTL components and allowed the proposal of a model of the functional translocon. Their arrangement around a central lipid-containing pool conveys an unexpected, but compelling mechanism for membrane-protein insertion. The periplasmic domains of YidC and SecD are poised at the protein-channel exit-site of SecY, presumably to aid the emergence of translocating polypeptides. The SecY lateral gate for membrane-insertion is adjacent to the membrane 'insertase' YidC. Absolute-scale SANS employing a novel contrast-match-point analysis revealed a dynamic complex adopting open and compact configurations around an adaptable central lipid-filled chamber, wherein polytopic membrane-proteins could fold, sheltered from aggregation and proteolysis.


    Organizational Affiliation

    School of Biochemistry, University of Bristol, BS8 1TD, United Kingdom.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Protein translocase subunit SecYY458Escherichia coliMutation(s): 0 
Gene Names: secYprlAb3300JW3262
Find proteins for P0AGA2 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0AGA2
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Protein translocase subunit SecEE140Escherichia coliMutation(s): 0 
Gene Names: secEprlGb3981JW3944
Find proteins for P0AG96 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0AG96
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Protein-export membrane protein SecGG136Escherichia coliMutation(s): 0 
Gene Names: secGb3175JW3142
Find proteins for P0AG99 (Escherichia coli (strain K12))
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Protein translocase subunit SecDD622Escherichia coliMutation(s): 0 
Gene Names: secDb0408JW0398
Find proteins for P0AG90 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0AG90
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  • Reference Sequence
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Protein translocase subunit SecFF323Escherichia coliMutation(s): 0 
Gene Names: secFb0409JW0399
Find proteins for P0AG93 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0AG93
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  • Reference Sequence
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Membrane protein insertase YidCC559Escherichia coliMutation(s): 0 
Gene Names: yidCb3705JW3683
Find proteins for P25714 (Escherichia coli (strain K12))
Explore P25714 
Go to UniProtKB:  P25714
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 14.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Baden-Wurttemberg StiftungGermanyMeth-P-LS-4
French National Research AgencyFranceANR- 09-JCJC-0044
Biotechnology and Biological Sciences Research CouncilUnited KingdomBB/P000940/1

Revision History 

  • Version 1.0: 2016-12-28
    Type: Initial release
  • Version 1.1: 2017-08-02
    Changes: Data collection