Crystal Structure of hypothetical protein PyrSV_gp04 from Pyrobaculum spherical virus

Experimental Data Snapshot

  • Resolution: 1.70 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.185 

wwPDB Validation   3D Report Full Report

This is version 1.3 of the entry. See complete history


The Scottish Structural Proteomics Facility: Targets, Methods and Outputs.

Oke, M.Carter, L.G.Johnson, K.A.Liu, H.Mcmahon, S.A.Yan, X.Kerou, M.Weikart, N.D.Kadi, N.Sheikh, M.A.Schmelz, S.Dorward, M.Zawadzki, M.Cozens, C.Falconer, H.Powers, H.Overton, I.M.Van Niekerk, C.A.J.Peng, X.Patel, P.Garrett, R.A.Prangishvili, D.Botting, C.H.Coote, P.J.Dryden, D.T.F.Barton, G.J.Schwarz-Linek, U.Challis, G.L.Taylor, G.L.White, M.F.Naismith, J.H.

(2010) J Struct Funct Genomics 11: 167

  • DOI: https://doi.org/10.1007/s10969-010-9090-y
  • Primary Citation of Related Structures:  
    2IVY, 2JG5, 2JG6, 2VW8, 2VXZ, 2WJ9, 2X0O, 2X3D, 2X3E, 2X3F, 2X3G, 2X3L, 2X3M, 2X3N, 2X3O, 2X48, 2X4G, 2X4H, 2X4I, 2X4J, 2X4K, 2X4L, 2X5C, 2X5D, 2X5F, 2X5G, 2X5H, 2X5P, 2X5Q, 2X5R, 2X5T, 2X7B, 2X7I, 2XU2

  • PubMed Abstract: 

    The Scottish Structural Proteomics Facility was funded to develop a laboratory scale approach to high throughput structure determination. The effort was successful in that over 40 structures were determined. These structures and the methods harnessed to obtain them are reported here. This report reflects on the value of automation but also on the continued requirement for a high degree of scientific and technical expertise. The efficiency of the process poses challenges to the current paradigm of structural analysis and publication. In the 5 year period we published ten peer-reviewed papers reporting structural data arising from the pipeline. Nevertheless, the number of structures solved exceeded our ability to analyse and publish each new finding. By reporting the experimental details and depositing the structures we hope to maximize the impact of the project by allowing others to follow up the relevant biology.

  • Organizational Affiliation

    Biomedical Sciences Research Complex, University of St Andrews, St Andrews, KY16 9ST, UK.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
PYRSV_GP04165Pyrobaculum spherical virusMutation(s): 0 
Find proteins for Q6ZYJ9 (Pyrobaculum spherical virus (isolate United States/Yellowstone))
Explore Q6ZYJ9 
Go to UniProtKB:  Q6ZYJ9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6ZYJ9
Sequence Annotations
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
Query on MSE
Experimental Data & Validation

Experimental Data

  • Resolution: 1.70 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.185 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 39.753α = 90
b = 46.654β = 90
c = 81.363γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-11-17
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Version format compliance
  • Version 1.2: 2011-09-28
    Changes: Database references, Non-polymer description, Structure summary
  • Version 1.3: 2018-01-24
    Changes: Source and taxonomy