3OM9

T. Gondii bradyzoite-specific LDH (LDH1) in complex with NAD and OXQ

• PDB DOI: https://doi.org/10.2210/pdb3OM9/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Toxoplasma gondii
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2010-08-26 Released: 2010-10-27 
• Deposition Author(s): Susko, M.S., Wilson, D.K.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.98 Å
• R-Value Free: 0.223 
• R-Value Observed: 0.196 

Literature

T.Gondii bradyzoite-specific LDH (LDH1) in complex with NAD and OXQ

Susko, M.S., Wilson, D.K.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 145.33 kDa 
• Atom Count: 10,521 
• Modelled Residue Count: 1,310 
• Deposited Residue Count: 1,316 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lactate dehydrogenase	A, B, C, D	329	Toxoplasma gondii	Mutation(s): 0  Gene Names: Lactate Dehydrogenase, TGGT1_115280 EC: 1.1.1.27
UniProt
Find proteins for P90613 (Toxoplasma gondii) Explore P90613  Go to UniProtKB:  P90613

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAD	E [auth A], G [auth B], I [auth C], K [auth D]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N
OXQ	F [auth A], H [auth B], J [auth C], L [auth D]	4-HYDROXY-1,2,5-OXADIAZOLE-3-CARBOXYLIC ACID C3 H2 N2 O4 IBRWUZLLHSXPKL-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.98 Å
• R-Value Free: 0.223 
• R-Value Observed: 0.196 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.307	α = 90
b = 124.458	β = 105.61
c = 86.721	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
X-PLOR	model building
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-10-27 
Deposition Author(s): Susko, M.S., Wilson, D.K.

Revision History  

• Version 1.0: 2010-10-27
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references, Derived calculations