Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Macromolecule Content

• Total Structure Weight: 23.11 kDa 
• Atom Count: 1457 
• Residue Count: 172 
• Unique protein chains: 2

4B4S

Crystal Structure of a pro-survival Bcl-2:Bim BH3 complex

• DOI: 10.2210/pdb4B4S/pdb

• Classification: APOPTOSIS
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2012-08-01 Released: 2013-01-16 
• Deposition Author(s): Rautureau, G.J.P., Hinds, M.G., Kvansakul, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.220 
• R-Value Work: 0.196 
• R-Value Observed: 0.197 

Literature

The Restricted Binding Repertoire of Bcl-B Leaves Bim as the Universal Bh3-Only Prosurvival Bcl-2 Protein Antagonist.

Rautureau, G.J.P., Yabal, M., Yang, H., Huang, D.C.S., Kvansakul, M., Hinds, M.G.

(2012) Cell Death Dis 3: E443

• PubMed: 23235460 
• DOI: 10.1038/cddis.2012.178
• Primary Citation of Related Structures:  
  4B4S


• PubMed Abstract: 
  

B-cell lymphoma-2 (Bcl-2) proteins mediate intrinsic-, or mitochondrial-, initiated apoptosis. We have investigated the structure and function of the least characterized Bcl-2 family member, Bcl-B, solving the crystal structure of a Bcl-B:Bim complex to 1.9 Å resolution. Bcl-B is distinguished from other Bcl-2 family members through an insertion of an unstructured loop between helices α5 and α6. Probing Bcl-B interactions with Bcl-2 homology (BH)3 motifs using a combination of biophysical- and cell-based assays revealed a unique BH3-only protein binding profile. Bcl-B has high-affinity interactions with Bim and Bik only. Our results not only delineate the mode of action of Bcl-B but also complete our understanding of the specific interactions between BH3-only proteins and their prosurvival Bcl-2 counterparts. Notably, we conclude that Bim is the universal prosurvival antagonist as no other BH3-only protein binds all six prosurvival proteins and that Mcl-1 and Bcl-x(L) form a distinct prosurvival dyad.

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Organizational Affiliation: 

Walter and Eliza Hall Institute of Medical Research, 1G Royal Parade, Parkville, Victoria 3052, Australia.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BCL-2-LIKE PROTEIN 10	A	175	Homo sapiens	Mutation(s): 2  Gene Names: BCL2L10, BCLB
Find proteins for Q9HD36 (Homo sapiens) Explore Q9HD36  Go to UniProtKB:  Q9HD36
NIH Common Fund Data Resources
PHAROS:  Q9HD36 GTEx:  ENSG00000137875

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
BCL-2-LIKE PROTEIN 11	B	28	Homo sapiens	Mutation(s): 0  Gene Names: BCL2L11, BIM
Find proteins for O43521 (Homo sapiens) Explore O43521  Go to UniProtKB:  O43521
NIH Common Fund Data Resources
PHAROS:  O43521 GTEx:  ENSG00000153094

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PG4	A	TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.220 
• R-Value Work: 0.196 
• R-Value Observed: 0.197 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.843	α = 90
b = 94.845	β = 90
c = 96.372	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
SCALA	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-08-01 
• Released Date: 2013-01-16 
Deposition Author(s): Rautureau, G.J.P., Hinds, M.G., Kvansakul, M.

Revision History 

• Version 1.0: 2013-01-16
  Type: Initial release