1T24

Plasmodium falciparum lactate dehydrogenase complexed with NAD+ and 4-hydroxy-1,2,5-oxadiazole-3-carboxylic acid

Structural Biology Knowledgebase: 1T24 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.167
  • R-Value Work: 0.142

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1T24

Classification: OXIDOREDUCTASE

Total Structure Weight: 35863.48

Macromolecule Entities
Molecule Chains Length Organism Details
L-lactate dehydrogenase A 322 Plasmodium falciparum EC#: 1.1.1.27 IUBMB
Gene Name(s):

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

A NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
OXQ
Query on OXQ

A 4-HYDROXY-1,2,5-OXADIAZOLE-3-CARBOXYLIC ACID
C3 H2 N2 O4
IBRWUZLLHSXPKL-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
OXQ IC50: 650 nM (100) BindingDB
Ki: 210 nM (100) BindingDB

IC50: 650 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.167
  • R-Value Work: 0.142
  • Space Group: I 2 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 80.49 α = 90.00
b = 85.91 β = 90.00
c = 90.45 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-04-20
  • Released Date: 2004-05-11
  • Deposition author(s): Cameron, A., Read, J., Tranter, R., Winter, V.J., Sessions, R.B., Brady, R.L., Vivas, L., Easton, A., Kendrick, H., Croft, S.L., Barros, D., Lavandera, J.L., Martin, J.J., Risco, F., Garcia-Ochoa, S., Gamo, F.J., Sanz, L., Leon, L., Ruiz, J.R., Gabarro, R., Mallo, A., De Las Heras, F.G.

Revision History

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