4ZB2

A native form of glucose isomerase collected at room temperature.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.140 
  • R-Value Work: 0.106 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

A generic protocol for protein crystal dehydration using the HC1b humidity controller.

Lobley, C.M.Sandy, J.Sanchez-Weatherby, J.Mazzorana, M.Krojer, T.Nowak, R.P.Sorensen, T.L.

(2016) Acta Crystallogr D Struct Biol 72: 629-640

  • DOI: 10.1107/S2059798316003065
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Dehydration may change the crystal lattice and affect the mosaicity, resolution and quality of X-ray diffraction data. A dehydrating environment can be generated around a crystal in several ways with various degrees of precision and complexity. This ...

    Dehydration may change the crystal lattice and affect the mosaicity, resolution and quality of X-ray diffraction data. A dehydrating environment can be generated around a crystal in several ways with various degrees of precision and complexity. This study uses a high-precision crystal humidifier/dehumidifier to provide an airstream of known relative humidity in which the crystals are mounted: a precise yet hassle-free approach to altering crystal hydration. A protocol is introduced to assess the impact of crystal dehydration systematically applied to nine experimental crystal systems. In one case, that of glucose isomerase, dehydration triggering a change of space group from I222 to P21212 was observed. This observation is supported by an extended study of the behaviour of the glucose isomerase crystal structure during crystal dehydration.


    Organizational Affiliation

    Diamond Light Source, Harwell Science and Innovation Campus, Didcot OX11 0DE, England.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Xylose isomerase
A
388Streptomyces rubiginosusMutation(s): 0 
Gene Names: xylA
EC: 5.3.1.5
Find proteins for P24300 (Streptomyces rubiginosus)
Go to UniProtKB:  P24300
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MN
Query on MN

Download SDF File 
Download CCD File 
A
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
FRU
Query on FRU

Download SDF File 
Download CCD File 
A
FRUCTOSE
C6 H12 O6
RFSUNEUAIZKAJO-ARQDHWQXSA-N
 Ligand Interaction
GLC
Query on GLC

Download SDF File 
Download CCD File 
A
ALPHA-D-GLUCOSE
C6 H12 O6
WQZGKKKJIJFFOK-DVKNGEFBSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.140 
  • R-Value Work: 0.106 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 94.074α = 90.00
b = 99.225β = 90.00
c = 103.034γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
xia2data reduction
xia2data scaling
MOLREPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2015-04-14 
  • Released Date: 2016-03-23 
  • Deposition Author(s): Sandy, J.

Revision History 

  • Version 1.0: 2016-03-23
    Type: Initial release
  • Version 1.1: 2016-05-11
    Type: Database references