3QPE

Crystal structure of Galacturonate Dehydratase from GEOBACILLUS SP. complexed with D-Galacturonate and 5-keto-4-deoxy-D-Galacturonate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.796 Å
  • R-Value Free: 0.270 
  • R-Value Work: 0.221 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of Galacturonate Dehydratase from GEOBACILLUS SP. complexed with D-Galacturonate and 5-keto-4-deoxy-D-Galacturonate

Fedorov, A.A.Fedorov, E.V.Mills-Groninger, F.Gerlt, J.A.Almo, S.C.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Mandelate racemase/muconate lactonizing protein
A, B, C, D
392Geobacillus sp. (strain Y412MC10)N/A
Find proteins for D3EID5 (Geobacillus sp. (strain Y412MC10))
Go to UniProtKB:  D3EID5
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
C
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A, B, C, D
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
DGU
Query on DGU

Download SDF File 
Download CCD File 
A
D-galacturonic acid
D-Galacturonate
C6 H10 O7
IAJILQKETJEXLJ-RSJOWCBRSA-N
 Ligand Interaction
D54
Query on D54

Download SDF File 
Download CCD File 
B, C, D
4-deoxy-L-threo-hex-5-ulosuronic acid
5-keto-4-deoxy-D-Galacturonate
C6 H8 O6
IMUGYKFHMJLTOU-UCORVYFPSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.796 Å
  • R-Value Free: 0.270 
  • R-Value Work: 0.221 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 158.019α = 90.00
b = 66.265β = 95.73
c = 154.609γ = 90.00
Software Package:
Software NamePurpose
ADSCdata collection
SCALEPACKdata scaling
PHENIXrefinement
BALBESphasing
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-02-15
    Type: Initial release