2OJ5 | pdb_00002oj5

Crystal Structure of Reovirus T3D Attachment Protein Sigma1 head domain wild-type at 1.75 A resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 
    0.274 (Depositor), 0.271 (DCC) 
  • R-Value Work: 
    0.228 (Depositor), 0.226 (DCC) 
  • R-Value Observed: 
    0.232 (Depositor) 

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 2OJ5

This is version 1.3 of the entry. See complete history

Literature

The Reovirus Sigma1 Aspartic Acid Sandwich: A TRIMERIZATION MOTIF POISED FOR CONFORMATIONAL CHANGE.

Schelling, P.Guglielmi, K.M.Kirchner, E.Paetzold, B.Dermody, T.S.Stehle, T.

(2007) J Biological Chem 282: 11582-11589

  • DOI: https://doi.org/10.1074/jbc.M610805200
  • Primary Citation Related Structures: 
    2OJ5, 2OJ6

  • PubMed Abstract: 

    Reovirus attachment protein sigma1 mediates engagement of receptors on the surface of target cells and undergoes dramatic conformational rearrangements during viral disassembly in the endocytic pathway. The sigma1 protein is a filamentous, trimeric molecule with a globular beta-barrel head domain. An unusual cluster of aspartic acid residues sandwiched between hydrophobic tyrosines is located at the sigma1 subunit interface. A 1.75-A structure of the sigma1 head domain now reveals two water molecules at the subunit interface that are held strictly in position and interact with neighboring residues. Structural and biochemical analyses of mutants affecting the aspartic acid sandwich indicate that these residues and the corresponding chelated water molecules act as a plug to block the free flow of solvent and stabilize the trimer. This arrangement of residues at the sigma1 head trimer interface illustrates a new protein design motif that may confer conformational mobility during cell entry.


  • Organizational Affiliation
    • Interfakultäres Institut für Biochemie, Universität Tübingen, Hoppe-Seyler-Strasse 4, D-72076 Tübingen, Germany.

Macromolecule Content 

  • Total Structure Weight: 107.64 kDa 
  • Atom Count: 8,851 
  • Modeled Residue Count: 971 
  • Deposited Residue Count: 990 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Viral attachment protein sigma 1
A, B, C, D, E
A, B, C, D, E, F
165Reovirus sp.Mutation(s): 0 
Gene Names: S1
UniProt
Find proteins for P03528 (Reovirus type 3 (strain Dearing))
Explore P03528 
Go to UniProtKB:  P03528
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP03528
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free:  0.274 (Depositor), 0.271 (DCC) 
  • R-Value Work:  0.228 (Depositor), 0.226 (DCC) 
  • R-Value Observed: 0.232 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 83.927α = 90
b = 51.381β = 95.66
c = 108.87γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
ADSCdata collection
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-02-13
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance
  • Version 1.3: 2023-08-30
    Changes: Data collection, Database references, Derived calculations, Refinement description