Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 46.86 kDa 
• Atom Count: 3965 
• Residue Count: 430 
• Unique protein chains: 1

6MG4

Structure of full-length human lambda-6A light chain JTO

• DOI: 10.2210/pdb6MG4/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-09-12 Released: 2019-04-10 
• Deposition Author(s): Morgan, G.J., Yan, N.L., Mortenson, D.E., Stanfield, R.L., Wilson, I.A., Kelly, J.W.
• Funding Organization(s): National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.221 
• R-Value Work: 0.171 
• R-Value Observed: 0.173 

Literature

Stabilization of amyloidogenic immunoglobulin light chains by small molecules.

Morgan, G.J., Yan, N.L., Mortenson, D.E., Rennella, E., Blundon, J.M., Gwin, R.M., Lin, C.Y., Stanfield, R.L., Brown, S.J., Rosen, H., Spicer, T.P., Fernandez-Vega, V., Merlini, G., Kay, L.E., Wilson, I.A., Kelly, J.W.

(2019) Proc Natl Acad Sci U S A 116: 8360-8369

• PubMed: 30971495 
• DOI: 10.1073/pnas.1817567116
• Structures With Same Primary Citation


• PubMed Abstract: 
  

In Ig light-chain (LC) amyloidosis (AL), the unique antibody LC protein that is secreted by monoclonal plasma cells in each patient misfolds and/or aggregates, a process leading to organ degeneration. As a step toward developing treatments for AL patients with substantial cardiac involvement who have difficulty tolerating existing chemotherapy regimens, we introduce small-molecule kinetic stabilizers of the native dimeric structure of full-length LCs, which can slow or stop the amyloidogenicity cascade at its origin. A protease-coupled fluorescence polarization-based high-throughput screen was employed to identify small molecules that kinetically stabilize LCs. NMR and X-ray crystallographic data demonstrate that at least one structural family of hits bind at the LC-LC dimerization interface within full-length LCs, utilizing variable-domain residues that are highly conserved in most AL patients. Stopping the amyloidogenesis cascade at the beginning is a proven strategy to ameliorate postmitotic tissue degeneration.

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Organizational Affiliation: 

The Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
JTO light chain	A, B	217	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.221 
• R-Value Work: 0.171 
• R-Value Observed: 0.173 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.385	α = 90
b = 82.464	β = 90
c = 97.017	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2018-09-12 
• Released Date: 2019-04-10 
Deposition Author(s): Morgan, G.J., Yan, N.L., Mortenson, D.E., Stanfield, R.L., Wilson, I.A., Kelly, J.W.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)	United States	DK46335

Revision History 

• Version 1.0: 2019-04-10
  Type: Initial release
  
• Version 1.1: 2019-04-24
  Changes: Data collection, Database references
• Version 1.2: 2019-05-01
  Changes: Data collection, Database references
• Version 1.3: 2019-12-25
  Changes: Author supporting evidence