Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C6  (3D View)
Global Stoichiometry: Hetero 12-mer - A6B6 

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

Biological Assembly 2  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C6  (3D View)
Global Stoichiometry: Hetero 12-mer - A6B6 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 786.95 kDa 
• Atom Count: 53920 
• Modelled Residue Count: 6736 
• Deposited Residue Count: 6876 
• Unique protein chains: 2

2H1L

The Structure of the Oncoprotein SV40 Large T Antigen and p53 Tumor Suppressor Complex

• PDB DOI: 10.2210/pdb2H1L/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Macaca mulatta polyomavirus 1, Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2006-05-16 Released: 2006-09-12 
• Deposition Author(s): Lilyestrom, W., Klein, M.G., Chen, X.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.16 Å
• R-Value Free: 0.308 
• R-Value Work: 0.261 
• R-Value Observed: 0.069 

Literature

Crystal structure of SV40 large T-antigen bound to p53: interplay between a viral oncoprotein and a cellular tumor suppressor.

Lilyestrom, W., Klein, M.G., Zhang, R., Joachimiak, A., Chen, X.S.

(2006) Genes Dev 20: 2373-2382

• PubMed: 16951253 
• DOI: 10.1101/gad.1456306
• Primary Citation of Related Structures:  
  2H1L


• PubMed Abstract: 
  

The transformation potential of Simian Virus 40 depends on the activities of large T-antigen (LTag), which interacts with several cellular tumor suppressors including the important "guardian" of the genome, p53. Inhibition of p53 function by LTag is necessary for both efficient viral replication and cellular transformation. We determined the crystal structure of LTag in complex with p53. The structure reveals an unexpected hexameric complex of LTag binding six p53 monomers. Structure-guided mutagenesis of LTag and p53 residues supported the p53-LTag interface defined by the complex structure. The structure also shows that LTag binding induces dramatic conformational changes at the DNA-binding area of p53, which is achieved partially through an unusual "methionine switch" within p53. In the complex structure, LTag occupies the whole p53 DNA-binding surface and likely interferes with formation of a functional p53 tetramer. In addition, we showed that p53 inhibited LTag helicase function through direct complex formation.

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Organizational Affiliation: 

Molecular and Computational Biology, University of Southern California at Los Angeles, Los Angeles, California 90089, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Large T antigen	A, B, C, D, E, F, G, H, I, J, K, L	370	Macaca mulatta polyomavirus 1	Mutation(s): 0  Gene Names: Gene A EC: 3.6.4
UniProt
Find proteins for P03070 (Simian virus 40) Explore P03070  Go to UniProtKB:  P03070

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Cellular tumor antigen p53	M, N, O, P, Q, R, S, T, U, V, W, X	203	Homo sapiens	Mutation(s): 0  Gene Names: P53, TP53
UniProt & NIH Common Fund Data Resources
Find proteins for P04637 (Homo sapiens) Explore P04637  Go to UniProtKB:  P04637
PHAROS:  P04637

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	AA [auth C], BA [auth D], CA [auth E], DA [auth F], EA [auth G], FA [auth H], GA [auth I], HA [auth J], IA [auth K], JA [auth L], KA [auth M], LA [auth N], MA [auth O], NA [auth P], OA [auth Q], PA [auth R], QA [auth S], RA [auth T], SA [auth U], TA [auth V], UA [auth W], VA [auth X], Y [auth A], Z [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.16 Å
• R-Value Free: 0.308 
• R-Value Work: 0.261 
• R-Value Observed: 0.069 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 127.019	α = 90
b = 182.718	β = 92.08
c = 262.061	γ = 90

Software Package:

Software Name	Purpose
CrystalClear	data collection
HKL-2000	data reduction
MOLREP	phasing
CNS	refinement
CrystalClear	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-05-16 
• Released Date: 2006-09-12 
Deposition Author(s): Lilyestrom, W., Klein, M.G., Chen, X.S.

Revision History  

• Version 1.0: 2006-09-12
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2020-08-26
  Changes: Data collection, Database references, Derived calculations, Structure summary