Copper nitrite reductase from Achromobacter cycloclastes: large polymorph dataset 15

Experimental Data Snapshot

  • Resolution: 1.80 Å
  • R-Value Free: 0.205 
  • R-Value Work: 0.166 
  • R-Value Observed: 0.168 

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Resolving polymorphs and radiation-driven effects in microcrystals using fixed-target serial synchrotron crystallography.

Ebrahim, A.Appleby, M.V.Axford, D.Beale, J.Moreno-Chicano, T.Sherrell, D.A.Strange, R.W.Hough, M.A.Owen, R.L.

(2019) Acta Crystallogr D Struct Biol 75: 151-159

  • DOI: https://doi.org/10.1107/S2059798318010240
  • Primary Citation of Related Structures:  
    6GB8, 6GBB, 6GBY, 6GCG

  • PubMed Abstract: 

    The ability to determine high-quality, artefact-free structures is a challenge in micro-crystallography, and the rapid onset of radiation damage and requirement for a high-brilliance X-ray beam mean that a multi-crystal approach is essential. However, the combination of crystal-to-crystal variation and X-ray-induced changes can make the formation of a final complete data set challenging; this is particularly true in the case of metalloproteins, where X-ray-induced changes occur rapidly and at the active site. An approach is described that allows the resolution, separation and structure determination of crystal polymorphs, and the tracking of radiation damage in microcrystals. Within the microcrystal population of copper nitrite reductase, two polymorphs with different unit-cell sizes were successfully separated to determine two independent structures, and an X-ray-driven change between these polymorphs was followed. This was achieved through the determination of multiple serial structures from microcrystals using a high-throughput high-speed fixed-target approach coupled with robust data processing.

  • Organizational Affiliation

    School of Biological Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, England.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Copper-containing nitrite reductase378Achromobacter cycloclastesMutation(s): 0 
Gene Names: nirK
Find proteins for P25006 (Achromobacter cycloclastes)
Explore P25006 
Go to UniProtKB:  P25006
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP25006
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.80 Å
  • R-Value Free: 0.205 
  • R-Value Work: 0.166 
  • R-Value Observed: 0.168 
  • Space Group: P 21 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 97.989α = 90
b = 97.989β = 90
c = 97.989γ = 90
Software Package:
Software NamePurpose
DIALSdata reduction

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research CouncilUnited KingdomBB/M022714/1
Leverhulme TrustUnited KingdomRPG-2014-355

Revision History  (Full details and data files)

  • Version 1.0: 2019-01-30
    Type: Initial release
  • Version 1.1: 2019-03-13
    Changes: Data collection, Database references