Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 28352.87 
• Atom Count: 1932 
• Residue Count: 254 
• Unique protein chains: 1

3ESN

Human transthyretin (TTR) complexed with N-(3,5-Dibromo-4-hydroxyphenyl)-2,6-dimethylbenzamide

• DOI: 10.2210/pdb3ESN/pdb

• Classification: HORMONE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2008-10-06 Released: 2009-04-07 
• Deposition Author(s): Connelly, S., Wilson, I.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 0.202 
• R-Value Work: 0.173 

Literature

Toward optimization of the second aryl substructure common to transthyretin amyloidogenesis inhibitors using biochemical and structural studies.

Johnson, S.M., Connelly, S., Wilson, I.A., Kelly, J.W.

(2009) J.Med.Chem. 52: 1115-1125

• PubMed: 19191553 
• DOI: 10.1021/jm801347s
• Primary Citation of Related Structures:  
  3ESP, 3ESO


• PubMed Abstract: 
  

Transthyretin (TTR) amyloidogenesis inhibitors are typically composed of two aromatic rings and a linker. We have previously established optimal structures for one aromatic ring and the linker. Herein, we employ a suboptimal linker and an optimal aryl-X substructure to rank order the desirability of aryl-Z substructures--using a library of 56 N-(3,5-dibromo-4-hydroxyphenyl)benzamides. Coconsideration of amyloid inhibition potency and ex vivo plasma TTR binding selectivity data reveal that 2,6, 2,5, 2, 3,4,5, and 3,5 substituted aryls bearing small substituents generate the most potent and selective inhibitors, in descending order. These benzamides generally lack undesirable thyroid hormone receptor binding and COX-1 inhibition activity. Three high-resolution TTR.inhibitor crystal structures (1.31-1.35 A) provide insight into why these inhibitors are potent and selective, enabling future structure-based design of TTR kinetic stabilizers.

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Organizational Affiliation: 

Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Transthyretin	A, B	127	Homo sapiens	Mutation(s): 0  Gene Names: TTR (PALB)
Find proteins for P02766 (Homo sapiens) Go to Gene View: TTR Go to UniProtKB:  P02766

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
DZ1	A, B	N-(3,5-dibromo-4-hydroxyphenyl)-2,6-dimethylbenzamide C15 H13 Br2 N O2 IFECSMFQARKPSU-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 0.202 
• R-Value Work: 0.173 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 42.654	α = 90.00
b = 84.620	β = 90.00
c = 64.937	γ = 90.00

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2008-10-06 
• Released Date: 2009-04-07 
• Deposition Author(s): Connelly, S., Wilson, I.A.

Revision History 

• Version 1.0: 2009-04-07
  Type: Initial release
• Version 1.1: 2011-07-13
  Type: Version format compliance