3QFX

Trypanosoma brucei dihydrofolate reductase pyrimethamine complex

Structural Biology Knowledgebase: 3QFX SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.235
  • R-Value Work: 0.187

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3QFX

Classification: OXIDOREDUCTASE / OXIDOREDUCTASE INHIBITOR

Total Structure Weight: 54603.59

Macromolecule Entities
Molecule Chains Length Organism Details
Bifunctional dihydrofolate reductase-thymidylate synthase A, B 241 Trypanosoma brucei EC#: 1.5.1.3 IUBMB
Fragment: DHFR domain
Gene Name(s):

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)
CP6
Query on CP6

A, B 5-(4-CHLORO-PHENYL)-6-ETHYL-PYRIMIDINE-2,4- DIAMINE
PYRIMETHAMINE (Synonym)
C12 H13 Cl N4
WKSAUQYGYAYLPV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
CP6 N/A in BindingDB
Ki: 24.2 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.235
  • R-Value Work: 0.187
  • Space Group: P 41
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 58.24 α = 90.00
b = 58.24 β = 90.00
c = 149.14 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-01-24
  • Released Date: 2011-06-29
  • Deposition author(s): Vanichtanankul, J., Yuvaniyama, J., Taweechai, S., Chitnumsub, P., Kamchonwongpaisan, S., Yuthavong, Y.

Revision History

  • 2013-06-26
    Type: Citation | Details: Citation update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4