6JEH

Crystal structure of calcium free human gelsolin amyloid mutant D187Y


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.193 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

The role of gelsolin domain 3 in familial amyloidosis (Finnish type).

Zorgati, H.Larsson, M.Ren, W.Sim, A.Y.L.Gettemans, J.Grimes, J.M.Li, W.Robinson, R.C.

(2019) Proc.Natl.Acad.Sci.USA 116: 13958-13963

  • DOI: 10.1073/pnas.1902189116
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • In the disease familial amyloidosis, Finnish type (FAF), also known as AGel amyloidosis (AGel), the mechanism by which point mutations in the calcium-regulated actin-severing protein gelsolin lead to furin cleavage is not understood in the intact pro ...

    In the disease familial amyloidosis, Finnish type (FAF), also known as AGel amyloidosis (AGel), the mechanism by which point mutations in the calcium-regulated actin-severing protein gelsolin lead to furin cleavage is not understood in the intact protein. Here, we provide a structural and biochemical characterization of the FAF variants. X-ray crystallography structures of the FAF mutant gelsolins demonstrate that the mutations do not significantly disrupt the calcium-free conformations of gelsolin. Small-angle X-ray-scattering (SAXS) studies indicate that the FAF calcium-binding site mutants are slower to activate, whereas G167R is as efficient as the wild type. Actin-regulating studies of the gelsolins at the furin cleavage pH (6.5) show that the mutant gelsolins are functional, suggesting that they also adopt relatively normal active conformations. Deletion of gelsolin domains leads to sensitization to furin cleavage, and nanobody-binding protects against furin cleavage. These data indicate instability in the second domain of gelsolin (G2), since loss or gain of G2-stabilizing interactions impacts the efficiency of cleavage by furin. To demonstrate this principle, we engineered non-FAF mutations in G3 that disrupt the G2-G3 interface in the calcium-activated structure. These mutants led to increased furin cleavage. We carried out molecular dynamics (MD) simulations on the FAF and non-FAF mutant G2-G3 fragments of gelsolin. All mutants showed an increase in the distance between the center of masses of the 2 domains (G2 and G3). Since G3 covers the furin cleavage site on G2 in calcium-activated gelsolin, this suggests that destabilization of this interface is a critical step in cleavage.


    Organizational Affiliation

    Bioinformatics Institute, Agency for Science, Technology and Research (A*STAR), 138671 Singapore, Singapore.,Research Institute for Interdisciplinary Science, Okayama University, 700-8530 Okayama, Japan.,Diamond Light Source Ltd., Didcot OX11 ODE, United Kingdom.,Division of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, United Kingdom.,Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), 138673 Singapore, Singapore.,National Laboratory of Solid State Microstructure, Department of Physics, Collaborative Innovation Center of Advanced Microstructures, Nanjing University, 210093 Nanjing, China.,Department of Biochemistry, National University of Singapore, 117596 Singapore, Singapore.,School of Biomolecular Science and Engineering, Vidyasirimedhi Institute of Science and Technology, 21210 Rayong, Thailand.,Nanobody Lab, Department of Biomolecular Medicine, Faculty of Medicine and Health Sciences, Ghent University, B-9000 Ghent, Belgium.,National Laboratory of Solid State Microstructure, Department of Physics, Collaborative Innovation Center of Advanced Microstructures, Nanjing University, 210093 Nanjing, China; wfli@nju.eu.cn br.okayama.u@gmail.com.,Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), 138673 Singapore, Singapore; wfli@nju.eu.cn br.okayama.u@gmail.com.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Gelsolin
A, B
727Homo sapiensMutation(s): 1 
Gene Names: GSN
Find proteins for P06396 (Homo sapiens)
Go to Gene View: GSN
Go to UniProtKB:  P06396
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.193 
  • Space Group: P 4 21 2
Unit Cell:
Length (Å)Angle (°)
a = 169.232α = 90.00
b = 169.232β = 90.00
c = 151.087γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
PDB_EXTRACTdata extraction
HKL-2000data scaling
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-06-12
    Type: Initial release
  • Version 1.1: 2019-07-24
    Type: Data collection, Database references