7QAR

Serial crystallography structure of cofactor-free urate oxidase in complex with the 5-peroxo derivative of 9-methyl uric acid at room temperature


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.218 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Rapid and efficient room-temperature serial synchrotron crystallography using the CFEL TapeDrive.

Zielinski, K.A.Prester, A.Andaleeb, H.Bui, S.Yefanov, O.Catapano, L.Henkel, A.Wiedorn, M.O.Lorbeer, O.Crosas, E.Meyer, J.Mariani, V.Domaracky, M.White, T.A.Fleckenstein, H.Sarrou, I.Werner, N.Betzel, C.Rohde, H.Aepfelbacher, M.Chapman, H.N.Perbandt, M.Steiner, R.A.Oberthuer, D.

(2022) IUCrJ 9: 778-791

  • DOI: https://doi.org/10.1107/S2052252522010193
  • Primary Citation of Related Structures:  
    7QAR, 7ZPV, 7ZQ0, 8AF4, 8AF5, 8AF6, 8AF7, 8AF8

  • PubMed Abstract: 

    Serial crystallography at conventional synchrotron light sources (SSX) offers the possibility to routinely collect data at room temperature using micrometre-sized crystals of biological macromolecules. However, SSX data collection is not yet as routine and currently takes significantly longer than the standard rotation series cryo-crystallography. Thus, its use for high-throughput approaches, such as fragment-based drug screening, where the possibility to measure at physio-logical temperatures would be a great benefit, is impaired. On the way to high-throughput SSX using a conveyor belt based sample delivery system - the CFEL TapeDrive - with three different proteins of biological relevance ( Klebsiella pneumoniae CTX-M-14 β-lactamase, Nectria haematococca xylanase GH11 and Aspergillus flavus urate oxidase), it is shown here that complete datasets can be collected in less than a minute and only minimal amounts of sample are required.


  • Organizational Affiliation

    Center for Free-Electron Laser Science CFEL, Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607 Hamburg, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
UricaseA [auth AAA]302Aspergillus flavusMutation(s): 0 
Gene Names: uaZuox
EC: 1.7.3.3
UniProt
Find proteins for Q00511 (Aspergillus flavus)
Explore Q00511 
Go to UniProtKB:  Q00511
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ00511
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
XDS (Subject of Investigation/LOI)
Query on XDS

Download Ideal Coordinates CCD File 
B [auth AAA](5S)-5-(dioxidanyl)-9-methyl-7H-purine-2,6,8-trione
C6 H6 N4 O5
JQXTWGOGXIASQD-LURJTMIESA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.218 
  • Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 79.79α = 90
b = 96.03β = 90
c = 105.21γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
CrystFELdata reduction
CrystFELdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/P000169/1

Revision History  (Full details and data files)

  • Version 1.0: 2023-04-26
    Type: Initial release
  • Version 1.1: 2024-02-07
    Changes: Data collection, Refinement description