5E7S

Hexameric structure of a LonA protease domain in active state


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.03 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.227 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural Basis for the Magnesium-Dependent Activation and Hexamerization of the Lon AAA+ Protease

Su, S.-C.Lin, C.-C.Tai, H.-C.Chang, M.-Y.Ho, M.-R.Babu, C.S.Liao, J.-H.Wu, S.-H.Chang, Y.-C.Lim, C.Chang, C.-I.

(2016) Structure 24: 676-686

  • DOI: 10.1016/j.str.2016.03.003
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The Lon AAA+ protease (LonA) plays important roles in protein homeostasis and regulation of diverse biological processes. LonA behaves as a homomeric hexamer in the presence of magnesium (Mg(2+)) and performs ATP-dependent proteolysis. However, it is ...

    The Lon AAA+ protease (LonA) plays important roles in protein homeostasis and regulation of diverse biological processes. LonA behaves as a homomeric hexamer in the presence of magnesium (Mg(2+)) and performs ATP-dependent proteolysis. However, it is also found that LonA can carry out Mg(2+)-dependent degradation of unfolded protein substrate in an ATP-independent manner. Here we show that in the presence of Mg(2+) LonA forms a non-secluded hexameric barrel with prominent openings, which explains why Mg(2+)-activated LonA can operate as a diffusion-based chambered protease to degrade unstructured protein and peptide substrates efficiently in the absence of ATP. A 1.85 Å crystal structure of Mg(2+)-activated protease domain reveals Mg(2+)-dependent remodeling of a substrate-binding loop and a potential metal-binding site near the Ser-Lys catalytic dyad, supported by biophysical binding assays and molecular dynamics simulations. Together, these findings reveal the specific roles of Mg(2+) in the molecular assembly and activation of LonA.


    Organizational Affiliation

    Institute of Biological Chemistry, Academia Sinica, Taipei, Taiwan 11529, ROC; Institute of Biochemical Sciences, National Taiwan University, Taipei, Taiwan 10617, ROC.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Lon protease
A, B, C, D, E, F, G, H, I, J, K, L
298Meiothermus taiwanensisMutation(s): 0 
Gene Names: lonA1 (lon)
EC: 3.4.21.53
Find proteins for A0A059VAZ3 (Meiothermus taiwanensis)
Go to UniProtKB:  A0A059VAZ3
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.03 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.227 
  • Space Group: C 1 2 1
  • Diffraction Data DOI: 
    10.15785/SBGRID/316 SBGrid
Unit Cell:
Length (Å)Angle (°)
a = 116.309α = 90.00
b = 212.787β = 100.80
c = 178.921γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
Cootmodel building
REFMACrefinement
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-03-16
    Type: Initial release
  • Version 1.1: 2016-04-20
    Type: Database references
  • Version 1.2: 2016-05-18
    Type: Database references, Experimental preparation