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The structure of cobalt-substituted pseudoazurin from Alcaligenes faecalis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.178 
  • R-Value Work: 0.150 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

The crystal structure of cobalt-substituted pseudoazurin from Alcaligenes faecalis.

Gessmann, R.Kyvelidou, C.Papadovasilaki, M.Petratos, K.

(2011) Biopolymers 95: 202-207

  • DOI: 10.1002/bip.21553

  • PubMed Abstract: 
  • The Cu(II) center at the active site of the blue copper protein pseudoazurin from Alcaligenes faecalis has been substituted by Co(II) via denaturing of the protein, chelation and removal of copper by EDTA and refolding of the apo-protein, followed by ...

    The Cu(II) center at the active site of the blue copper protein pseudoazurin from Alcaligenes faecalis has been substituted by Co(II) via denaturing of the protein, chelation and removal of copper by EDTA and refolding of the apo-protein, followed by addition of an aqueous solution of CoCl(2). Sitting drop vapour diffusion experiments produced green hexagonal crystals, which belong to space group P6(5), with unit cell dimensions a = b = 50.03, c = 98.80 Å. Diffraction data, collected at 291 K on a copper rotating anode X-ray source, were phased by the anomalous signal of the cobalt atom. The structure was built automatically, fitted manually and subsequently refined to 1.86 Å resolution. The Co-substituted protein exhibits similar overall geometry to the native structure with copper. Cobalt binds more strongly to the axial Met86-Sδ and retains the tetrahedral arrangement with the four ligand atoms, His40-Nδ(1), Cys78-Sγ, His81-Nδ(1), and 86Met-Sδ, although the structure is less distorted than the native copper protein. The structure reported herein, is the first crystallographic structure of a Co(II)-substituted pseudoazurin.


    Organizational Affiliation

    I.M.B.B.-FO.R.T.H., N. Plastira 100, Heraklion 70013, Greece.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Pseudoazurin
A
123Alcaligenes faecalisMutation(s): 0 
Find proteins for P04377 (Alcaligenes faecalis)
Go to UniProtKB:  P04377
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CO
Query on CO

Download SDF File 
Download CCD File 
A
COBALT (II) ION
Co
XLJKHNWPARRRJB-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.178 
  • R-Value Work: 0.150 
  • Space Group: P 65
Unit Cell:
Length (Å)Angle (°)
a = 50.033α = 90.00
b = 50.033β = 90.00
c = 98.803γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement
Pattersonphasing
DENZOdata reduction
SCALEPACKdata scaling
Pattersonmodel building

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-10-20
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance