5FKV

cryo-EM structure of the E. coli replicative DNA polymerase complex bound to DNA (DNA polymerase III alpha, beta, epsilon, tau complex)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.04 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.5 of the entry. See complete history

Literature

cryo-EM structures of theE. colireplicative DNA polymerase reveal its dynamic interactions with the DNA sliding clamp, exonuclease andtau.

Fernandez-Leiro, R.Conrad, J.Scheres, S.H.Lamers, M.H.

(2015) Elife 4: --

  • DOI: 10.7554/eLife.11134
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The replicative DNA polymerase PolIIIα from Escherichia coli is a uniquely fast and processive enzyme. For its activity it relies on the DNA sliding clamp β, the proofreading exonuclease ε and the C-terminal domain of the clamp loader subunit τ. Due ...

    The replicative DNA polymerase PolIIIα from Escherichia coli is a uniquely fast and processive enzyme. For its activity it relies on the DNA sliding clamp β, the proofreading exonuclease ε and the C-terminal domain of the clamp loader subunit τ. Due to the dynamic nature of the four-protein complex it has long been refractory to structural characterization. Here we present the 8 Å resolution cryo-electron microscopy structures of DNA-bound and DNA-free states of the PolIII-clamp-exonuclease-τc complex. The structures show how the polymerase is tethered to the DNA through multiple contacts with the clamp and exonuclease. A novel contact between the polymerase and clamp is made in the DNA bound state, facilitated by a large movement of the polymerase tail domain and τc. These structures provide crucial insights into the organization of the catalytic core of the replisome and form an important step towards determining the structure of the complete holoenzyme.


    Organizational Affiliation

    MRC Laboratory of Molecular Biology, Cambridge, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
DNA POLYMERASE III SUBUNIT ALPHA
A
1160Escherichia coli (strain K12)Mutation(s): 2 
Gene Names: dnaE (polC)
EC: 2.7.7.7
Find proteins for P10443 (Escherichia coli (strain K12))
Go to UniProtKB:  P10443
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
DNA POLYMERASE III BETA
B, C
366Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: dnaN
Find proteins for P0A988 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A988
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
DNA POLYMERASE III EPSILON
D
243Escherichia coli (strain K12)Mutation(s): 4 
Gene Names: dnaQ (mutD)
EC: 2.7.7.7
Find proteins for P03007 (Escherichia coli (strain K12))
Go to UniProtKB:  P03007
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
DNA POLYMERASE III TAU
E
144Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: dnaX (dnaZ, dnaZX)
EC: 2.7.7.7
Find proteins for P06710 (Escherichia coli (strain K12))
Go to UniProtKB:  P06710
Entity ID: 5
MoleculeChainsLengthOrganism
PRIMER-TEMPLATE DUPLEX DNAP25synthetic construct
Entity ID: 6
MoleculeChainsLengthOrganism
PRIMER-TEMPLATE DUPLEX DNAT29synthetic construct
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.04 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-11-25
    Type: Initial release
  • Version 1.1: 2016-12-21
    Type: Database references
  • Version 1.2: 2017-04-19
    Type: Other
  • Version 1.3: 2018-06-20
    Type: Advisory, Data collection, Derived calculations
  • Version 1.4: 2018-10-03
    Type: Advisory, Data collection, Derived calculations
  • Version 1.5: 2019-02-27
    Type: Data collection, Database references