8I0O | pdb_00008i0o

Crystal structure of Transthyretin variant A97S in monomeric form


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.88 Å
  • R-Value Free: 
    0.234 (Depositor), 0.230 (DCC) 
  • R-Value Work: 
    0.185 (Depositor), 0.190 (DCC) 
  • R-Value Observed: 
    0.188 (Depositor) 

Starting Model: experimental
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Literature

The Structural and Dynamic Insights into the Ala97Ser Amyloidogenic Mutation in Transthyretin.

Feng, Y.C.Agrawal, S.Yang, C.H.Chang, H.C.Kuo, L.Yu, W.C.Liu, Y.T.Yu, T.Y.

(2024) Chem Asian J : e202401438-e202401438

  • DOI: https://doi.org/10.1002/asia.202401438
  • Primary Citation of Related Structures:  
    8I00, 8I0O

  • PubMed Abstract: 

    Transthyretin (TTR), a homo-tetrameric protein encoded by the TTR gene, can lead to amyloid diseases when destabilized by mutations. The TTR-Ala97Ser (A97S) mutation is the predominant pathogenic variant found in Han-Taiwanese patients and is associated with late-onset familial amyloid polyneuropathy (FAP), which presents a rapid progression of symptoms affecting peripheral nerves and the heart. In this study, we combined nuclear magnetic resonance (NMR) spectroscopy and X-ray crystallography to investigate how the A97S mutation impacts the structure and dynamics of TTR. Previous X-ray analyses indicated that the FG loop exhibits increased flexibility due to the mutation, evidenced by missing electron density and a reduced number of hydrogen bonds. Our NMR hydrogen-deuterium (H/D) exchange experiments provided additional insights, revealing that inter-residue hydrogen bonds among the FG loop residues are unstable in both wild-type (WT) and A97S TTR. Notably, the hydrogen bonds between G67 and S97 are unstable, influencing the stability of adjacent loops. This elongation of the FG loop is believed to contribute to increased flexibility and enhanced water-protein proton exchange, as observed in NMR relaxation and chemical exchange experiments. Our findings offer a comprehensive understanding of how the A97S mutation affects TTR structure and dynamics, providing new insights into its amyloidogenicity.


  • Organizational Affiliation
    • Institute of Atomic and Molecular Sciences, Academia Sinica, No. 1, Sec. 4, Roosevelt Rd., Daan Dist., Taipei, 106319, Taiwan.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transthyretin
A, B, C, D
127Homo sapiensMutation(s): 3 
Gene Names: TTRPALB
UniProt & NIH Common Fund Data Resources
Find proteins for P02766 (Homo sapiens)
Explore P02766 
Go to UniProtKB:  P02766
PHAROS:  P02766
GTEx:  ENSG00000118271 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02766
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.88 Å
  • R-Value Free:  0.234 (Depositor), 0.230 (DCC) 
  • R-Value Work:  0.185 (Depositor), 0.190 (DCC) 
  • R-Value Observed: 0.188 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 64.932α = 90
b = 83.97β = 90
c = 84.938γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
SCALEPACKdata scaling
HKL-2000data reduction
PHENIXphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Academia Sinica (Taiwan)TaiwanVTA112-V1-7-3

Revision History  (Full details and data files)

  • Version 1.0: 2024-01-17
    Type: Initial release
  • Version 1.1: 2025-02-05
    Changes: Database references, Structure summary