1DFO

CRYSTAL STRUCTURE AT 2.4 ANGSTROM RESOLUTION OF E. COLI SERINE HYDROXYMETHYLTRANSFERASE IN COMPLEX WITH GLYCINE AND 5-FORMYL TETRAHYDROFOLATE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.196
  • R-Value Work: 0.174

Literature

Macromolecules
Sequence Display for 1DFO

Classification: TRANSFERASE

Total Structure Weight: 184602.20

Macromolecule Entities
Molecule Chains Length Organism Details
SERINE HYDROXYMETHYLTRANSFERASE A, B, C, D 417 Escherichia coli EC#: 2.1.2.1 IUBMB
Gene Name(s): glyA b2551 JW2535
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D N-[4-({[(6S)-2-amino-5-formyl-4-oxo-3,4,5,6,7,8- hexahydropteridin-6-yl]methyl}amino)benzoyl]- L-glutamic acid
[6S]-5-FORMYL-TETRAHYDROFOLATE; 6S-FOLINIC ACID (Synonym)
C20 H23 N7 O7
VVIAGPKUTFNRDU-STQMWFEESA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PLG
Query on PLG

A, B, C, D N-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL- PYRIDIN-4-YL-METHANE]
N-PYRIDOXYL-GLYCINE-5-MONOPHOSPHATE (Synonym)
C10 H15 N2 O7 P
FEVQWBMNLWUBTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
FFO N/A in BindingDB
N/A in BindingMoad
Ki: 200 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.196
  • R-Value Work: 0.174
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 77.46 α = 90.00
b = 172.24 β = 104.12
c = 95.05 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-11-20
  • Released Date: 1999-12-10
  • Deposition author(s): Scarsdale, J.N., Radaev, S., Kazanina, G., Schirch, V., Wright, H.T.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4