Nitrite-bound thermostable copper nitrite reductase at 320 K

Experimental Data Snapshot

  • Resolution: 1.55 Å
  • R-Value Free: 0.131 
  • R-Value Work: 0.115 
  • R-Value Observed: 0.115 

wwPDB Validation   3D Report Full Report

This is version 1.2 of the entry. See complete history


High-temperature and high-resolution crystallography of thermostable copper nitrite reductase.

Fukuda, Y.Inoue, T.

(2015) Chem Commun (Camb) 51: 6532-6535

  • DOI: https://doi.org/10.1039/c4cc09553g
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    The 1.55 Å resolution thermostable copper nitrite reductase structure at 320 K displayed a near-bidentate binding mode of nitrite distinct from a monodentate mode in a cryogenic structure. To our knowledge, this is the first case in which the difference in substrate binding modes between cryogenic and high-temperature structures has been visualized by crystallography.

  • Organizational Affiliation

    Department of Applied Chemistry, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan. y_fukuda@chem.eng.osaka-u.ac.jp.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Nitrite reductase352Geobacillus thermodenitrificans NG80-2Mutation(s): 1 
Gene Names: nirKGTNG_0650
Find proteins for A4IL26 (Geobacillus thermodenitrificans (strain NG80-2))
Explore A4IL26 
Go to UniProtKB:  A4IL26
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA4IL26
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.55 Å
  • R-Value Free: 0.131 
  • R-Value Work: 0.115 
  • R-Value Observed: 0.115 
  • Space Group: H 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 116.3α = 90
b = 116.3β = 90
c = 85.652γ = 120
Software Package:
Software NamePurpose
BSSdata collection
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-01-21
    Type: Initial release
  • Version 1.1: 2022-08-24
    Changes: Database references, Derived calculations
  • Version 1.2: 2023-11-08
    Changes: Data collection, Refinement description