4PLY

Crystal structure of ancestral apicomplexan malate dehydrogenase with malate.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.189

Literature

Macromolecules
Sequence Display for 4PLY

Classification: OXIDOREDUCTASE

Total Structure Weight: 297523.59

Macromolecule Entities
Molecule Chains Length Organism Details
malate dehydrogenase A, B, C..., D, E, F, G, HA, B, C, D, E, F, G, H 331 Apicomplexa Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D, E, F, G, H 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE
NADH (Synonym)
C21 H29 N7 O14 P2
BOPGDPNILDQYTO-NNYOXOHSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PYR
Query on PYR

A, B, D, E, F, H PYRUVIC ACID
C3 H4 O3
LCTONWCANYUPML-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: 0.238
  • R-Value Work: 0.189
  • Space Group: P 1

Unit Cell:

Length (Å) Angle (°)
a = 59.31 α = 90.01
b = 90.69 β = 90.01
c = 136.30 γ = 71.44

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-05-19
  • Released Date: 2014-07-02
  • Deposition author(s): Boucher, J.I., Jacobowitz, J.R., Beckett, B.C., Classen, S., Theobald, D.L.

Revision History

  • Version 1_0: 2014-07-02

    Type: Initial release

  • Version 1_1: 2014-07-16

    Type: Database references

  • Version 1_2: 2014-07-30

    Type: Database references

  • Version 1_3: 2014-09-24

    Type: Structure summary

  • Version 1_4: 2014-10-01

    Type: Database references

  • Version 1_5: 2017-09-27

    Type: Author supporting evidence, Derived calculations, Other, Source and taxonomy