3EEJ

Candida glabrata Dihydrofolate Reductase complexed with 2,4-diamino-5-[3-methyl-3-(3-methoxy-5-phenylphenyl)prop-1-ynyl]-6-methylpyrimidine(UCP111D) and NADPH

Structural Biology Knowledgebase: 3EEJ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.11 Å
  • R-Value Free: 0.229
  • R-Value Work: 0.167

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3EEJ

Classification: OXIDOREDUCTASE

Total Structure Weight: 55062.74

Macromolecule Entities
Molecule Chains Length Organism Details
Dihydrofolate reductase A, B 227 Candida glabrata Gene Name(s): CAGL0J03894g

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
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
53R
Query on 53R

A, B 5-[(3R)-3-(5-methoxybiphenyl-3-yl)but-1-yn- 1-yl]-6-methylpyrimidine-2,4-diamine
C22 H22 N4 O
JPENSYBRTSIYGO-AWEZNQCLSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
53R N/A in BindingDB
IC50: 7.3 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.11 Å
  • R-Value Free: 0.229
  • R-Value Work: 0.167
  • Space Group: P 41
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 42.87 α = 90.00
b = 42.87 β = 90.00
c = 231.49 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-09-04
  • Released Date: 2009-08-18
  • Deposition author(s): Liu, J., Anderson, A.

Revision History

  • 2013-11-20
    Type: Non-polymer description | Details: Corrected ligand label
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4