2TBD

SV40 T ANTIGEN DNA-BINDING DOMAIN, NMR, 30 STRUCTURES

• PDB DOI: https://doi.org/10.2210/pdb2TBD/pdb
• BMRB: 4127

• Classification: DNA BINDING PROTEIN
• Organism(s): Betapolyomavirus macacae
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 1997-01-09 Released: 1997-04-01 
• Deposition Author(s): Luo, X., Sanford, D.G., Bullock, P.A., Bachovchin, W.W.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 30 
• Conformers Submitted: 30 

Literature

Solution structure of the origin DNA-binding domain of SV40 T-antigen.

Luo, X., Sanford, D.G., Bullock, P.A., Bachovchin, W.W.

(1996) Nat Struct Biol 3: 1034-1039

• PubMed: 8946857 
• DOI: https://doi.org/10.1038/nsb1296-1034
• Primary Citation of Related Structures:  
  1TBD, 2TBD


• PubMed Abstract: 
  

  The structure of the domain from simian virus 40 (SV40) large T-antigen that binds to the SV40 origin of DNA replication (T-ag-OBD131-260) has been determined by nuclear magnetic resonance spectroscopy. The overall fold, consisting of a central five-stranded antiparallel beta-sheet flanked by two alpha-helices on one side and one alpha-helix and one 3(10)-helix on the other, is a new one. Previous mutational analyses have identified two elements, termed A (approximately 152-155) and B2 (203-207), as essential for origin-specific recognition. These elements form two closely juxtaposed loops that define a continuous surface on the protein. The addition of a duplex oligonucleotide containing the origin recognition pentanucleotide GAGGC induces chemical shift changes and slows amide proton exchange in resonances from this region, indicating that this surface directly contacts the DNA.

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Organizational Affiliation: 

Department of Biochemistry, Tufts University School of Medicine, Boston, Massachusetts 02111, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 15.41 kDa 
• Atom Count: 1,087 
• Modelled Residue Count: 134 
• Deposited Residue Count: 134 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SV40 T ANTIGEN	A	134	Betapolyomavirus macacae	Mutation(s): 0
UniProt
Find proteins for Q98ZP7 (Simian virus 40) Explore Q98ZP7  Go to UniProtKB:  Q98ZP7

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 30 
• Conformers Submitted: 30 

Structure Validation

Entry History 

Deposition Data

• Released Date: 1997-04-01 
Deposition Author(s): Luo, X., Sanford, D.G., Bullock, P.A., Bachovchin, W.W.

Revision History  

• Version 1.0: 1997-04-01
  Type: Initial release
  
• Version 1.1: 2008-03-25
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-03-16
  Changes: Data collection, Database references, Derived calculations, Other, Structure summary