3IKU | pdb_00003iku

Structural model of ParM filament in closed state from cryo-EM


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 18.0 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history

Literature

Structural polymorphism of the ParM filament and dynamic instability

Galkin, V.E.Orlova, A.Rivera, C.Mullins, R.D.Egelman, E.H.

(2009) Structure 17: 1253-1264

  • DOI: https://doi.org/10.1016/j.str.2009.07.008
  • Primary Citation Related Structures: 
    3IKU, 3IKY

  • PubMed Abstract: 

    Segregation of the R1 plasmid in bacteria relies on ParM, an actin homolog that segregates plasmids by switching between cycles of polymerization and depolymerization. We find similar polymerization kinetics and stability in the presence of either ATP or GTP and a 10-fold affinity preference for ATP over GTP. We used electron cryo-microscopy to evaluate the heterogeneity within ParM filaments. In addition to variable twist, ParM has variable axial rise, and both parameters are coupled. Subunits in the same ParM filaments can exist in two different structural states, with the nucleotide-binding cleft closed or open, and the bound nucleotide biases the distribution of states. The interface between protomers is different between these states, and in neither state is it similar to F-actin. Our results suggest that the closed state of the cleft is required but not sufficient for ParM polymerization, and provide a structural basis for the dynamic instability of ParM filaments.


  • Organizational Affiliation
    • Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, VA 22908-0733, USA. galkin@virginia.edu

Macromolecule Content 

  • Total Structure Weight: 429.65 kDa 
  • Atom Count: 29,880 
  • Modeled Residue Count: 3,792 
  • Deposited Residue Count: 3,840 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Plasmid segregation protein parM
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L
320Escherichia coliMutation(s): 0 
Gene Names: parMstbA
UniProt
Find proteins for P11904 (Escherichia coli)
Explore P11904 
Go to UniProtKB:  P11904
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP11904
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 18.0 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-09-29
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2024-02-21
    Changes: Author supporting evidence, Data collection, Database references