Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 28.12 kDa 
• Atom Count: 1896 
• Modelled Residue Count: 228 
• Deposited Residue Count: 254 
• Unique protein chains: 1

1BM7

HUMAN TRANSTHYRETIN (PREALBUMIN) COMPLEX WITH FLUFENAMIC ACID (2-[[3-(TRIFLUOROMETHYL)PHENYL]AMINO] BENZOIC ACID)

• PDB DOI: 10.2210/pdb1BM7/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1998-07-29 Released: 1998-08-05 
• Deposition Author(s): Klabunde, T., Kelly, J.W., Sacchettini, J.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.251 
• R-Value Work: 0.189 
• R-Value Observed: 0.189 

Literature

Inhibiting transthyretin conformational changes that lead to amyloid fibril formation.

Peterson, S.A., Klabunde, T., Lashuel, H.A., Purkey, H., Sacchettini, J.C., Kelly, J.W.

(1998) Proc Natl Acad Sci U S A 95: 12956-12960

• PubMed: 9789022 
• DOI: 10.1073/pnas.95.22.12956
• Primary Citation of Related Structures:  
  1BM7, 1BMZ


• PubMed Abstract: 
  

Insoluble protein fibrils resulting from the self-assembly of a conformational intermediate are implicated as the causative agent in several severe human amyloid diseases, including Alzheimer's disease, familial amyloid polyneuropathy, and senile systemic amyloidosis. The latter two diseases are associated with transthyretin (TTR) amyloid fibrils, which appear to form in the acidic partial denaturing environment of the lysosome. Here we demonstrate that flufenamic acid (Flu) inhibits the conformational changes of TTR associated with amyloid fibril formation. The crystal structure of TTR complexed with Flu demonstrates that Flu mediates intersubunit hydrophobic interactions and intersubunit hydrogen bonds that stabilize the normal tetrameric fold of TTR. A small-molecule inhibitor that stabilizes the normal conformation of a protein is desirable as a possible approach to treat amyloid diseases. Molecules such as Flu also provide the means to rigorously test the amyloid hypothesis, i.e., the apparent causative role of amyloid fibrils in amyloid disease.

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Organizational Affiliation: 

Department of Chemistry and Skaggs Institute of Chemical Biology, Scripps Research Institute, 10550 North Torrey Pines Road MB 12, La Jolla, CA 92037, USA.

Macromolecules

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

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FLF	C [auth A], D [auth B]	2-[[3-(TRIFLUOROMETHYL)PHENYL]AMINO] BENZOIC ACID C14 H10 F3 N O2 LPEPZBJOKDYZAD-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
FLF	Binding MOAD:  1BM7	Kd: 30 (nM) from 1 assay(s)
	PDBBind:  1BM7	Kd: 30 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.251 
• R-Value Work: 0.189 
• R-Value Observed: 0.189 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.18	α = 90
b = 85.32	β = 90
c = 64.46	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1998-07-29 
• Released Date: 1998-08-05 
Deposition Author(s): Klabunde, T., Kelly, J.W., Sacchettini, J.C.

Revision History  

• Version 1.0: 1998-08-05
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance