Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Dihedral - D3  (3D View)
Global Stoichiometry: Homo 6-mer - A6 

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

Macromolecule Content

• Total Structure Weight: 19405.31 
• Atom Count: 1105 
• Residue Count: 169 
• Unique protein chains: 1

4PPI

Crystal structure of Bcl-xL hexamer

• DOI: 10.2210/pdb4PPI/pdb

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


• Deposited: 2014-02-27 Released: 2015-03-04 
• Deposition Author(s): Sreekanth, R., Yoon, H.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.851 Å
• R-Value Free: 0.269 
• R-Value Work: 0.236 

Literature

Structural transition in Bcl-xL and its potential association with mitochondrial calcium ion transport

Rajan, S., Choi, M., Nguyen, Q.T., Ye, H., Liu, W., Toh, H.T., Kang, C., Kamariah, N., Li, C., Huang, H., White, C., Baek, K., Gruber, G., Yoon, H.S.

(2015) Sci Rep 5: 10609-10609

• PubMed: 26023881 
• DOI: 10.1038/srep10609


• PubMed Abstract: 
  

Bcl-2 family proteins are key regulators for cellular homeostasis in response to apoptotic stimuli. Bcl-xL, an antiapoptotic Bcl-2 family member, undergoes conformational transitions, which leads to two conformational states: the cytoplasmic and membrane-bound. Here we present the crystal and small-angle X-ray scattering (SAXS) structures of Bcl-xL treated with the mild detergent n-Octyl β-D-Maltoside (OM). The detergent-treated Bcl-xL forms a dimer through three-dimensional domain swapping (3DDS) by swapping helices α6-α8 between two monomers. Unlike Bax, a proapoptotic member of the Bcl-2 family, Bcl-xL is not converted to 3DDS homodimer upon binding BH3 peptides and ABT-737, a BH3 mimetic drug. We also designed Bcl-xL mutants which cannot dimerize and show that these mutants reduced mitochondrial calcium uptake in MEF cells. This illustrates the structural plasticity in Bcl-xL providing hints toward the probable molecular mechanism for Bcl-xL to play a regulatory role in mitochondrial calcium ion transport.

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Organizational Affiliation: 

School of Biological Sciences, Nanyang Technological University, 60 Nanyang Drive, Singapore 637551.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Bcl-2-like protein 1	A	169	Homo sapiens	Mutation(s): 0  Gene Names: BCL2L1 (BCL2L, BCLX)
Find proteins for Q07817 (Homo sapiens) Go to Gene View: BCL2L1 Go to UniProtKB:  Q07817

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
GOL	A	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.851 Å
• R-Value Free: 0.269 
• R-Value Work: 0.236 
• Space Group: I 4₁ 3 2

Unit Cell:

Length (Å)	Angle (°)
a = 153.630	α = 90.00
b = 153.630	β = 90.00
c = 153.630	γ = 90.00

Software Package:

Software Name	Purpose
ADSC	data collection
PHASER	phasing
PHENIX	refinement
SCALA	data scaling
MOSFLM	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2014-02-27 
• Released Date: 2015-03-04 
• Deposition Author(s): Sreekanth, R., Yoon, H.S.

Revision History 

• Version 1.0: 2015-03-04
  Type: Initial release
• Version 1.1: 2015-06-10
  Type: Database references