3E0B

Bacillus anthracis Dihydrofolate Reductase complexed with NADPH and 2,4-diamino-5-(3-(2,5-dimethoxyphenyl)prop-1-ynyl)-6-ethylpyrimidine (UCP120B)

Structural Biology Knowledgebase: 3E0B SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.191

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3E0B

Classification: OXIDOREDUCTASE

Total Structure Weight: 41606.79

Macromolecule Entities
Molecule Chains Length Organism Details
Dihydrofolate reductase A, B 166 Bacillus anthracis EC#: 1.5.1.3 IUBMB
Mutation: I2R
Gene Name(s): dfrA dfrD GBAA_2237 AB163_12585 AB164_02910 AB165_04300 AB166_16715 AB167_04225 AB168_28915 AB169_10700 AB170_26990 AB171_05210 AB893_11110 ADK17_12095 ADK18_10920 ADT20_24640 ADT21_25245 BF27_5333

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)
N22
Query on N22

A, B 5-[3-(2,5-dimethoxyphenyl)prop-1-yn-1-yl]- 6-ethylpyrimidine-2,4-diamine
C17 H20 N4 O2
NNFDQABYXZBKRK-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
N22 IC50: 890 nM (99) BindingDB
Ki: 300 nM (99) BindingDB

IC50: 890 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.191
  • Space Group: P 42
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 78.42 α = 90.00
b = 78.42 β = 90.00
c = 67.09 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-07-31
  • Released Date: 2008-11-25
  • Deposition author(s): Anderson, A.C., Beierlein, J.M., Frey, K.M.

Revision History

  • 2013-11-20
    Type: Non-polymer description | Details: change NAP to NDP
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4