1N7H

Crystal Structure of GDP-mannose 4,6-dehydratase ternary complex with NADPH and GDP

Structural Biology Knowledgebase: 1N7H SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.200
  • R-Value Work: 0.181

Literature

Macromolecules
Sequence Display for 1N7H

Classification: lyase

Total Structure Weight: 88546.74

Macromolecule Entities
Molecule Chains Length Organism Details
GDP-D-mannose-4,6-dehydratase A, B 381 Arabidopsis thaliana EC#: 4.2.1.47 IUBMB
Gene Name(s): MUR1 GMD2 At3g51160 F24M12.200
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
C21 H30 N7 O17 P3
ACFIXJIJDZMPPO-NNYOXOHSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GDP
Query on GDP

A, B GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.200
  • R-Value Work: 0.181
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 116.86 α = 90.00
b = 124.44 β = 90.00
c = 110.49 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-11-14
  • Released Date: 2003-01-07
  • Deposition author(s): Mulichak, A.M., Bonin, C.P., Reiter, W.-D., Garavito, R.M.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values