1X9T

The crystal structure of human adenovirus 2 penton base in complex with an ad2 N-terminal fibre peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.303 
  • R-Value Work: 0.306 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The structure of the human adenovirus 2 penton

Zubieta, C.Schoehn, G.Chroboczek, J.Cusack, S.

(2005) Mol.Cell 17: 121-135

  • DOI: 10.1016/j.molcel.2004.11.041
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The adenovirus penton, a noncovalent complex of the pentameric penton base and trimeric fiber proteins, comprises the vertices of the adenovirus capsid and contains all necessary components for viral attachment and internalization. The 3.3 A resoluti ...

    The adenovirus penton, a noncovalent complex of the pentameric penton base and trimeric fiber proteins, comprises the vertices of the adenovirus capsid and contains all necessary components for viral attachment and internalization. The 3.3 A resolution crystal structure of human adenovirus 2 (hAd2) penton base shows that the monomer has a basal jellyroll domain and a distal irregular domain formed by two long insertions, a similar topology to the adenovirus hexon. The Arg-Gly-Asp (RGD) motif, required for interactions with cellular integrins, occurs on a flexible surface loop. The complex of penton base with bound N-terminal fiber peptide, determined at 3.5 A resolution, shows that the universal fiber motif FNPVYPY binds at the interface of adjacent penton base monomers and results in a localized structural rearrangement in the insertion domain of the penton base. These results give insight into the structure and assembly of the adenovirus capsid and will be of use for gene-therapy applications.


    Organizational Affiliation

    European Molecular Biology Laboratory, Grenoble Outstation, BP 181, 38042 Grenoble Cedex 9, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Penton protein
A
523Human adenovirus C serotype 2Mutation(s): 0 
Gene Names: L2
Find proteins for P03276 (Human adenovirus C serotype 2)
Go to UniProtKB:  P03276
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
N-terminal peptide of Fiber protein
B
21Human adenovirus C serotype 2Mutation(s): 0 
Find proteins for P03275 (Human adenovirus C serotype 2)
Go to UniProtKB:  P03275
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
C15
Query on C15

Download SDF File 
Download CCD File 
A
N-DODECYL-N,N-DIMETHYL-3-AMMONIO-1-PROPANESULFONATE
C17 H38 N O3 S
IZWSFJTYBVKZNK-UHFFFAOYSA-O
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.303 
  • R-Value Work: 0.306 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 438.370α = 90.00
b = 299.825β = 103.22
c = 419.583γ = 90.00
Software Package:
Software NamePurpose
RAVEphasing
MOLREPphasing
CNSrefinement
CCP4data scaling
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-01-18
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance