1DDR

MOLECULE: DIHYDROFOLATE REDUCTASE (E.C.1.5.1.3) COMPLEXED WITH METHOTREXATE AND UREA

Structural Biology Knowledgebase: 1DDR SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.171
  • R-Value Work: 0.156

Literature

Macromolecules
Sequence Display for 1DDR

Classification: OXIDO-REDUCTASE

Total Structure Weight: 37359.13

Macromolecule Entities
Molecule Chains Length Organism Details
DIHYDROFOLATE REDUCTASE A, B 159 Escherichia coli EC#: 1.5.1.3 IUBMB
Gene Name(s): folA tmrA b0048 JW0047
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MTX
Query on MTX

A, B METHOTREXATE
C20 H22 N8 O5
FBOZXECLQNJBKD-ZDUSSCGKSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
URE
Query on URE

A, B UREA
C H4 N2 O
XSQUKJJJFZCRTK-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

B CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
MTX EC50: 1 nM (100) BindingDB
IC50: 3 - 4400 nM (100) BindingDB
Kd: <1 nM (100) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.171
  • R-Value Work: 0.156
  • Space Group: P 61
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 93.18 α = 90.00
b = 93.18 β = 90.00
c = 73.89 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1995-06-29
  • Released Date: 1995-10-15
  • Deposition author(s): Yennawar, H.P., Farber, G.K.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Source and taxonomy | Details: Removed strain from scientific name