Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 29.05 kDa 
• Atom Count: 2122 
• Residue Count: 230 
• Unique protein chains: 1

3P3S

Human transthyretin (TTR) complexed with (Z)-5-(3,5-dibromo-4-hydroxybenzylidene)-imino-1-methylimidazolidin-4-one

• DOI: 10.2210/pdb3P3S/pdb

• Classification: hormone-binding protein
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-10-05 Released: 2011-08-24 
• Deposition Author(s): Connelly, S., Wilson, I.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.232 
• R-Value Work: 0.204 
• R-Value Observed: 0.206 

Literature

Potent kinetic stabilizers that prevent transthyretin-mediated cardiomyocyte proteotoxicity.

Alhamadsheh, M.M., Connelly, S., Cho, A., Reixach, N., Powers, E.T., Pan, D.W., Wilson, I.A., Kelly, J.W., Graef, I.A.

(2011) Sci Transl Med 3: 97ra81-97ra81

• PubMed: 21865539 
• DOI: 10.1126/scitranslmed.3002473
• Structures With Same Primary Citation


• PubMed Abstract: 
  

A valine-to-isoleucine mutation at position 122 of the serum protein transthyretin (TTR), found in 3 to 4% of African Americans, alters its stability, leading to amyloidogenesis and cardiomyopathy. In addition, 10 to 15% of individuals older than 65 years develop senile systemic amyloidosis and cardiac TTR deposits because of wild-type TTR amyloidogenesis. Although several drugs are in development, no approved therapies for TTR amyloid cardiomyopathy are yet available, so the identification of additional compounds that prevent amyloid-mediated cardiotoxicity is needed. To this aim, we developed a fluorescence polarization-based high-throughput screen and used it to identify several new chemical scaffolds that target TTR. These compounds were potent kinetic stabilizers of TTR and prevented TTR tetramer dissociation, partial unfolding, and aggregation of both wild type and the most common cardiomyopathy-associated TTR mutant, V122I-TTR. High-resolution co-crystal structures and characterization of the binding energetics revealed how these diverse structures bound to tetrameric TTR. These compounds effectively inhibited the proteotoxicity of V122I-TTR toward human cardiomyocytes. Several of these ligands stabilized TTR in human serum more effectively than diflunisal, which is a well-studied inhibitor of TTR aggregation, and may be promising leads for the treatment or prevention of TTR-mediated cardiomyopathy.

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Organizational Affiliation: 

Department of Pathology, Stanford University Medical School, Stanford, CA 94305, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Transthyretin	A, B	127	Homo sapiens	Mutation(s): 0  Gene Names: PALB, TTR
Find proteins for P02766 (Homo sapiens) Explore P02766  Go to UniProtKB:  P02766
NIH Common Fund Data Resources
PHAROS  P02766 GTEx  ENSG00000118271

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
3M2	A, B	(5Z)-2-amino-5-(3,5-dibromo-4-hydroxybenzylidene)-1-methyl-1,5-dihydro-4H-imidazol-4-one C11 H9 Br2 N3 O2 XBSUMZSVMPLGBU-YWEYNIOJSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
3M2	Kd :  26   nM  PDBBind

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.232 
• R-Value Work: 0.204 
• R-Value Observed: 0.206 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.11	α = 90
b = 84.195	β = 90
c = 64.888	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-10-05 
• Released Date: 2011-08-24 
Deposition Author(s): Connelly, S., Wilson, I.A.

Revision History 

• Version 1.0: 2011-08-24
  Type: Initial release
  
• Version 1.1: 2013-01-09
  Changes: Database references