5TSD

Crystal structure of NADPH-dependent 2-hydroxyacid dehydrogenase from Rhizobium etli CFN 42 in complex with NADPH and oxalate

Structural Biology Knowledgebase: 5TSD SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.198
  • R-Value Work: 0.155

Literature

Macromolecules
Sequence Display for 5TSD

Classification: OXIDOREDUCTASE

Total Structure Weight: 73260.55

Macromolecule Entities
Molecule Chains Length Organism Details
Probable hydroxyacid dehydrogenase protein A, B 322 Rhizobium etli Gene Name(s): RHE_CH00179
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)
OXD
Query on OXD

A, B OXALIC ACID
C2 H2 O4
MUBZPKHOEPUJKR-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.198
  • R-Value Work: 0.155
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 68.94 α = 90.00
b = 70.12 β = 90.00
c = 126.61 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-10-28
  • Released Date: 2016-11-16
  • Deposition author(s): Matelska, D., Shabalin, I.G., Kutner, J., Handing, K.B., Gasiorowska, O.A., Cooper, D.R., Minor, W., New York Structural Genomics Research Consortium (NYSGRC)

Revision History

No revisions since initial release