Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 27.52 kDa 
• Atom Count: 1856 
• Residue Count: 254 
• Unique protein chains: 1

1X7S

The X-ray crystallographic structure of the amyloidogenic variant TTR Tyr78Phe

• DOI: 10.2210/pdb1X7S/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2004-08-16 Released: 2005-03-22 
• Deposition Author(s): Neto-Silva, R.M., Macedo-Ribeiro, S., Pereira, P.J.B., Saraiva, M.J., Damas, A.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.238 
• R-Value Work: 0.194 
• R-Value Observed: 0.195 

Literature

X-ray crystallographic studies of two transthyretin variants: further insights into amyloidogenesis.

Neto-Silva, R.M., Macedo-Ribeiro, S., Pereira, P.J., Coll, M., Saraiva, M.J., Damas, A.M.

(2005) Acta Crystallogr D Biol Crystallogr 61: 333-339

• PubMed: 15735344 
• DOI: 10.1107/S0907444904034316
• Primary Citation of Related Structures:  
  1X7T, 1X7S


• PubMed Abstract: 
  

Transthyretin (TTR) is a homotetrameric plasma protein that, as a result of a set of not yet fully characterized conformational changes, forms fibrillar aggregates that are the major protein component of amyloid deposits. More than 80 mutations associated with TTR amyloid deposition have been described in the literature. X-ray crystallography was used to elucidate the three-dimensional structure of two important TTR variants: TTR Y78F, an amyloidogenic protein, and TTR R104H, which is associated with a protective effect over the amyloidogenic V30M mutation. The structures of those two TTR variants have been determined in space group P2(1)2(1)2 to 1.55 and 1.60 angstroms resolution, respectively, using molecular-replacement techniques. Detailed analysis of the protein model for TTR Y78F indicates a destabilization of the contacts between the alpha-helix and AB loop and the body of the molecule, intimately related to the amyloidogenic nature; contrastingly, in the TTR R104H variant new contacts involving the N-terminal region and His104 are clearly antagonists of amyloid formation.

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Organizational Affiliation: 

Molecular Structure Group, Institute for Molecular and Cell Biology, Rua do Campo Alegre No. 823, 4150 Porto, Portugal.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transthyretin	A, B	127	Homo sapiens	Mutation(s): 1  Gene Names: TTR, PALB
Find proteins for P02766 (Homo sapiens) Explore P02766  Go to UniProtKB:  P02766
NIH Common Fund Data Resources
PHAROS  P02766 GTEx  ENSG00000118271

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.238 
• R-Value Work: 0.194 
• R-Value Observed: 0.195 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.719	α = 90
b = 86.082	β = 90
c = 63.799	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing
SHELXL-97	refinement
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-08-16 
• Released Date: 2005-03-22 
Deposition Author(s): Neto-Silva, R.M., Macedo-Ribeiro, S., Pereira, P.J.B., Saraiva, M.J., Damas, A.M.

Revision History 

• Version 1.0: 2005-03-22
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance