2LDX | pdb_00002ldx

CHARACTERIZATION OF THE ANTIGENIC SITES ON THE REFINED 3-ANGSTROMS RESOLUTION STRUCTURE OF MOUSE TESTICULAR LACTATE DEHYDROGENASE C4

• PDB DOI: https://doi.org/10.2210/pdb2LDX/pdb
• Entry: 2LDX supersedes: 1LDX

• Classification: OXIDOREDUCTASE(CHOH(D)-NAD(A))
• Organism(s): Mus musculus
• Mutation(s): No 


• Deposited: 1987-11-25 Released: 1989-04-19 
• Deposition Author(s): Griffith, J.P., Rossmann, M.G.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.96 Å
• R-Value Work: 
  0.261 (DCC) 
• R-Value Observed: 
  0.256 (Depositor) 

Literature

Characterization of the antigenic sites on the refined 3-A resolution structure of mouse testicular lactate dehydrogenase C4.

Hogrefe, H.H., Griffith, J.P., Rossmann, M.G., Goldberg, E.

(1987) J Biological Chem 262: 13155-13162

• PubMed: 2443489 
• Primary Citation Related Structures: 
  2LDX


• PubMed Abstract: 
  

  The atomic structure of mouse testicular apolactate dehydrogenase C4 has been refined to 3.0-A resolution yielding a final crystallographic R-factor of 0.256. Comparison with the refined structure of dogfish apolactate dehydrogenase A4 shows that equivalent secondary structure elements are essentially in the same position relative to the molecular 2-fold axes, except for the helices alpha D, alpha E, and alpha 2G in the vicinity of the active center, and the carboxyl-terminal helix alpha H. The positions of antigenic peptides correlate best with surface accessibilities of the monomer rather than of the full tetrameric molecule.

---

Organizational Affiliation: 
• Department of Biochemistry, Molecular Biology, and Cell Biology, Northwestern University, Evanston, Illinois 60201.

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: 143.47 kDa 
• Atom Count: 10,091 
• Modeled Residue Count: 1,324 
• Deposited Residue Count: 1,324 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
APO-LACTATE DEHYDROGENASE	A, B, C, D	331	Mus musculus	Mutation(s): 0  EC: 1.1.1.27
UniProt
Find proteins for P00342 (Mus musculus) Explore P00342  Go to UniProtKB:  P00342

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.96 Å
• R-Value Work:  0.261 (DCC) 
• R-Value Observed: 0.256 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.8	α = 109.7
b = 76.6	β = 89.5
c = 63.9	γ = 96.5

Software Package:

Software Name	Purpose
PROLSQ	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 1989-04-19 
Deposition Author(s): Griffith, J.P., Rossmann, M.G.
• This entry supersedes: 1LDX

Revision History  

• Version 1.0: 1989-04-19
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 2.0: 2023-07-26
  Type: Remediation
  Changes: Advisory, Atomic model, Data collection, Database references, Other, Refinement description
• Version 2.1: 2023-09-06
  Changes: Data collection, Refinement description