2H1L

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

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 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history. 


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

  • 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 ...

    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.

    Organizational Affiliation: 

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



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Large T antigen
A, B, C, D, E, F, G, H
A, B, C, D, E, F, G, H, I, J, K, L
370Macaca mulatta polyomavirus 1Mutation(s): 0 
Gene Names: Gene A
EC: 3.6.4
Find proteins for P03070 (Simian virus 40)
Explore P03070 
Go to UniProtKB:  P03070
Protein Feature View
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  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Cellular tumor antigen p53
M, N, O, P, Q, R, S, T
M, N, O, P, Q, R, S, T, U, V, W, X
203Homo sapiensMutation(s): 0 
Gene Names: P53, TP53
Find proteins for P04637 (Homo sapiens)
Explore P04637 
Go to UniProtKB:  P04637
NIH Common Fund Data Resources
PHAROS:  P04637
GTEx:  ENSG00000141510
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN
Download Ideal Coordinates CCD File 
AA [auth C] , BA [auth D] , CA [auth E] , DA [auth F] , EA [auth G] , FA [auth H] , GA [auth I] , HA [auth J] , 
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		 Ligand Interaction
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 = 127.019α = 90
b = 182.718β = 92.08
c = 262.061γ = 90
Software Package:
Software NamePurpose
CrystalCleardata collection
HKL-2000data reduction
MOLREPphasing
CNSrefinement
CrystalCleardata reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • 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