2JG6

CRYSTAL STRUCTURE OF A 3-METHYLADENINE DNA GLYCOSYLASE I FROM STAPHYLOCOCCUS AUREUS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.163 
  • R-Value Observed: 0.164 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

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: 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 ...

    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.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-3-METHYLADENINE GLYCOSIDASEA186Staphylococcus aureusMutation(s): 0 
Gene Names: 
EC: 3.2.2.20
UniProt
Find proteins for Q9RL93 (Staphylococcus aureus)
Explore Q9RL93 
Go to UniProtKB:  Q9RL93
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9RL93
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 
B [auth A]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.163 
  • R-Value Observed: 0.164 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 107.46α = 90
b = 63.098β = 109.24
c = 38.47γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
SHELXphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-02-20
    Type: Initial release
  • Version 1.1: 2011-09-28
    Changes: Database references, Derived calculations, Non-polymer description, Other, Refinement description, Structure summary, Version format compliance
  • Version 1.2: 2018-01-24
    Changes: Source and taxonomy