Biological Assembly 1  

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

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 1.35 kDa 
• Atom Count: 88 
• Modelled Residue Count: 6 
• Deposited Residue Count: 6 
• Unique protein chains: 1

3OVL

Structure of an amyloid forming peptide VQIVYK from the TAU protein in complex with orange G

• PDB DOI: 10.2210/pdb3OVL/pdb

• Classification: PROTEIN FIBRIL
• Mutation(s): No 


• Deposited: 2010-09-16 Released: 2011-07-06 
• Deposition Author(s): Landau, M., Eisenberg, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.81 Å
• R-Value Free: 0.259 
• R-Value Work: 0.259 
• R-Value Observed: 0.259 

Literature

Towards a pharmacophore for amyloid.

Landau, M., Sawaya, M.R., Faull, K.F., Laganowsky, A., Jiang, L., Sievers, S.A., Liu, J., Barrio, J.R., Eisenberg, D.

(2011) PLoS Biol 9: e1001080-e1001080

• PubMed: 21695112 
• DOI: 10.1371/journal.pbio.1001080
• Primary Citation of Related Structures:  
  3OVJ, 3OVL


• PubMed Abstract: 
  

Diagnosing and treating Alzheimer's and other diseases associated with amyloid fibers remains a great challenge despite intensive research. To aid in this effort, we present atomic structures of fiber-forming segments of proteins involved in Alzheimer's disease in complex with small molecule binders, determined by X-ray microcrystallography. The fiber-like complexes consist of pairs of β-sheets, with small molecules binding between the sheets, roughly parallel to the fiber axis. The structures suggest that apolar molecules drift along the fiber, consistent with the observation of nonspecific binding to a variety of amyloid proteins. In contrast, negatively charged orange-G binds specifically to lysine side chains of adjacent sheets. These structures provide molecular frameworks for the design of diagnostics and drugs for protein aggregation diseases.

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Organizational Affiliation: 

Howard Hughes Medical Institute, UCLA-DOE Institute for Genomics and Proteomics, Department of Biological Chemistry, University of California, Los Angeles, California, United States of America.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Microtubule-associated protein	A	6	N/A	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P10636 (Homo sapiens) Explore P10636  Go to UniProtKB:  P10636
PHAROS:  P10636

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ORA	E [auth A]	7-hydroxy-8-[(E)-phenyldiazenyl]naphthalene-1,3-disulfonic acid C16 H12 N2 O7 S2 MPVDXIMFBOLMNW-ISLYRVAYSA-N
ZN	B [auth A], C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
ACY	D [auth A]	ACETIC ACID C2 H4 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.81 Å
• R-Value Free: 0.259 
• R-Value Work: 0.259 
• R-Value Observed: 0.259 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.056	α = 90
b = 4.831	β = 102.98
c = 22.127	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
DENZO	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-09-16 
• Released Date: 2011-07-06 
Deposition Author(s): Landau, M., Eisenberg, D.

Revision History  

• Version 1.0: 2011-07-06
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance