Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

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

Macromolecule Content

• Total Structure Weight: 20514.32 
• Atom Count: 1222 
• Residue Count: 169 
• Unique protein chains: 1

4IEH

Crystal Structure of human Bcl-2 in complex with a small molecule inhibitor targeting Bcl-2 BH3 domain interactions

• DOI: 10.2210/pdb4IEH/pdb

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


• Deposited: 2012-12-13 Released: 2013-07-10 
• Deposition Author(s): Xie, X., Kulathila, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.1 Å
• R-Value Free: 0.218 
• R-Value Work: 0.179 

Literature

The role of the acidity of N-heteroaryl sulfonamides as inhibitors of bcl-2 family protein-protein interactions.

Toure, B.B., Miller-Moslin, K., Yusuff, N., Perez, L., Dore, M., Joud, C., Michael, W., DiPietro, L., van der Plas, S., McEwan, M., Lenoir, F., Hoe, M., Karki, R., Springer, C., Sullivan, J., Levine, K., Fiorilla, C., Xie, X., Kulathila, R., Herlihy, K., Porter, D., Visser, M.

(2013) ACS Med Chem Lett 4: 186-190

• PubMed: 24900652 
• DOI: 10.1021/ml300321d


• PubMed Abstract: 
  

Overexpression of the antiapoptotic members of the Bcl-2 family of proteins is commonly associated with cancer cell survival and resistance to chemotherapeutics. Here, we describe the structure-based optimization of a series of N-heteroaryl sulfonamides that demonstrate potent mechanism-based cell death. The role of the acidic nature of the sulfonamide moiety as it relates to potency, solubility, and clearance is examined. This has led to the discovery of novel heterocyclic replacements for the acylsulfonamide core of ABT-737 and ABT-263.

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Organizational Affiliation: 

Novartis Institutes for BioMedical Research Inc. , 250 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Apoptosis regulator Bcl-2, Bcl-2-like protein 1 chimera	A	169	Homo sapiens	Mutation(s): 0  Gene Names: BCL2, BCL2L1 (BCL2L, BCLX)
Find proteins for P10415 (Homo sapiens) Go to Gene View: BCL2 Go to UniProtKB:  P10415
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
1E9	A	N-(6-{4-[(4'-chlorobiphenyl-2-yl)methyl]piperazin-1-yl}-1,1-dioxido-1,2-benzothiazol-3-yl)-4-{[(2R)-4-(dimethylamino)-1-(phenylsulfanyl)butan-2-yl]amino}-3-nitrobenzenesulfonamide C42 H44 Cl N7 O6 S3 IXACTXFUQMBZJI-MGBGTMOVSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
1E9	Kd: 14 nM BINDINGMOAD

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.1 Å
• R-Value Free: 0.218 
• R-Value Work: 0.179 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 73.529	α = 90.00
b = 73.529	β = 90.00
c = 96.205	γ = 90.00

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-12-13 
• Released Date: 2013-07-10 
• Deposition Author(s): Xie, X., Kulathila, R.

Revision History 

• Version 1.0: 2013-07-10
  Type: Initial release
• Version 1.1: 2014-09-24
  Type: Database references
• Version 1.2: 2017-07-26
  Type: Refinement description, Source and taxonomy