Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B 

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

Macromolecule Content

• Total Structure Weight: 22.60 kDa 
• Atom Count: 1553 
• Residue Count: 176 
• Unique protein chains: 2

5FCG

Crystal structure of Bcl-2 in complex with HBx-BH3 motif

• DOI: 10.2210/pdb5FCG/pdb

• Classification: APOPTOSIS
• Organism(s): Homo sapiens, Hepatitis B virus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2015-12-15 Released: 2016-02-10 
• Deposition Author(s): Jiang, T.Y., Liu, M.H., Wu, J.P., Shi, Y.G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.276 
• R-Value Work: 0.255 
• R-Value Observed: 0.256 

Literature

Structural and biochemical analysis of Bcl-2 interaction with the hepatitis B virus protein HBx

Jiang, T.Y., Liu, M.H., Wu, J.P., Shi, Y.G.

(2016) Proc Natl Acad Sci U S A 

• PubMed: 26858413 
• DOI: 10.1073/pnas.1525616113
• Structures With Same Primary Citation


• PubMed Abstract: 
  

HBx is a hepatitis B virus protein that is required for viral infectivity and replication. Anti-apoptotic Bcl-2 family members are thought to be among the important host targets of HBx. However, the structure and function of HBx are poorly understood and the molecular mechanism of HBx-induced carcinogenesis remains unknown. In this study, we report biochemical and structural characterization of HBx. The recombinant HBx protein contains metal ions, in particular iron and zinc. A BH3-like motif in HBx (residues 110-135) binds Bcl-2 with a dissociation constant of ∼193 μM, which is drastically lower than that for a canonical BH3 motif from Bim or Bad. Structural analysis reveals that, similar to other BH3 motifs, the BH3-like motif of HBx adopts an amphipathic α-helix and binds the conserved BH3-binding groove on Bcl-2. Unlike the helical Bim or Bad BH3 motif, the C-terminal portion of the bound HBx BH3-like motif has an extended conformation and makes considerably fewer interactions with Bcl-2. These observations suggest that HBx may modulate Bcl-2 function in a way that is different from that of the classical BH3-only proteins.

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Organizational Affiliation: 

Ministry of Education Key Laboratory of Protein Science, Tsinghua-Peking Joint Center for Life Sciences, Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing 100084, China [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Apoptosis regulator Bcl-2	A	168	Homo sapiens	Mutation(s): 0  Gene Names: BCL2
Find proteins for P10415 (Homo sapiens) Explore P10415  Go to UniProtKB:  P10415
NIH Common Fund Data Resources
PHAROS  P10415 GTEx  ENSG00000171791

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Protein X	C	26	Hepatitis B virus	Mutation(s): 0
Find proteins for Q99HR6 (Hepatitis B virus genotype F2 (isolate Argentina/sa16/2000)) Explore Q99HR6  Go to UniProtKB:  Q99HR6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.276 
• R-Value Work: 0.255 
• R-Value Observed: 0.256 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.777	α = 90
b = 82.99	β = 90
c = 33.487	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data processing
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2015-12-15 
• Released Date: 2016-02-10 
Deposition Author(s): Jiang, T.Y., Liu, M.H., Wu, J.P., Shi, Y.G.

Revision History 

• Version 1.0: 2016-02-10
  Type: Initial release
  
• Version 1.1: 2016-02-24
  Changes: Database references, Other