1PMY

REFINED CRYSTAL STRUCTURE OF PSEUDOAZURIN FROM METHYLOBACTERIUM EXTORQUENS AM1 AT 1.5 ANGSTROMS RESOLUTION


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Work: 0.199 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Refined crystal structure of pseudoazurin from Methylobacterium extorquens AM1 at 1.5 A resolution.

Inoue, T.Kai, Y.Harada, S.Kasai, N.Ohshiro, Y.Suzuki, S.Kohzuma, T.Tobari, J.

(1994) Acta Crystallogr.,Sect.D 50: 317-328

  • DOI: 10.1107/S0907444994000260

  • PubMed Abstract: 
  • The crystal structure of pseudoazurin from Methylobacterium extorquens AM1 (PAZAM1) has been solved by the molecular replacement method using copper-copper distances as translation parameters, which were obtained from difference Patterson maps calcul ...

    The crystal structure of pseudoazurin from Methylobacterium extorquens AM1 (PAZAM1) has been solved by the molecular replacement method using copper-copper distances as translation parameters, which were obtained from difference Patterson maps calculated with the synchrotron radiation data containing the multiwavelength anomalous-dispersion effect. The structure refinement was carried out by the use of molecular dynamics optimization and the restrained least-squares method. The final crystallographic R factor was 19.9% for the 14 365 reflections greater than 3sigma between 1.5 and 8.0 A resolution. This report describes the characteristic features of the structure of PAZAM 1 as well as the effectiveness of synchrotron radiation for structure analysis of metalloproteins. The environment of the metal active site and the structural differences among blue-copper proteins are discussed.


    Related Citations: 
    • Preliminary Crystallographic Study of a Pseudoazurin from Methylotrophic Bacterium, Methylobacterium Extorquens Am1
      Inoue, T.,Kai, Y.,Harada, S.,Kasai, N.,Suzuki, S.,Kohzuma, T.,Tobari, J.
      (1991) J.Mol.Biol. 218: 19


    Organizational Affiliation

    Department of Applied Chemistry, Faculty of Engineering, Osaka University, Suita, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PSEUDOAZURIN
A
123Methylobacterium extorquens (strain ATCC 14718 / DSM 1338 / AM1)N/A
Find proteins for P04171 (Methylobacterium extorquens (strain ATCC 14718 / DSM 1338 / AM1))
Go to UniProtKB:  P04171
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CU
Query on CU

Download SDF File 
Download CCD File 
A
COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Work: 0.199 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 52.619α = 90.00
b = 63.280β = 90.00
c = 35.133γ = 90.00
Software Package:
Software NamePurpose
PROLSQrefinement
X-PLORrefinement
X-PLORmodel building
X-PLORphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1994-07-31
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-11-29
    Type: Derived calculations, Other