1EC9

E. COLI GLUCARATE DEHYDRATASE BOUND TO XYLAROHYDROXAMATE

Structural Biology Knowledgebase: 1EC9 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.281
  • R-Value Work: 0.179

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1EC9

Classification: LYASE

Total Structure Weight: 197903.29

Macromolecule Entities
Molecule Chains Length Organism Details
GLUCARATE DEHYDRATASE A, B, C, D 446 Escherichia coli EC#: 4.2.1.40 IUBMB
Gene Name(s): gudD ygcX b2787 JW2758

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
XYH
Query on XYH

A, B, C, D XYLAROHYDROXAMATE
C5 H8 N O7
DMGBHBFPSRKPBV-XZIMBLGRSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IPA
Query on IPA

A, B, D ISOPROPYL ALCOHOL
2-PROPANOL (Synonym)
C3 H8 O
KFZMGEQAYNKOFK-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, C, D MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
XYH N/A in BindingDB
Ki: 800000 nM  BindingMOAD
Ki: 800000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.281
  • R-Value Work: 0.179
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 71.29 α = 103.14
b = 84.84 β = 94.31
c = 98.99 γ = 113.20

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-01-25
  • Released Date: 2000-05-23
  • Deposition author(s): Gulick, A.M., Hubbard, B.K., Gerlt, J.A., Rayment, I.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4