1JG0

Crystal structure of Escherichia coli thymidylate synthase complexed with 2'-deoxyuridine-5'-monophosphate and N,O-didansyl-L-tyrosine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.212

Literature

Macromolecules
Sequence Display for 1JG0

Classification: TRANSFERASE

Total Structure Weight: 62687.23

Macromolecule Entities
Molecule Chains Length Organism Details
thymidylate synthase A, B 264 Escherichia coli EC#: 2.1.1.45 IUBMB
Mutation: M1X, R21A, R107A
Gene Name(s): thyA b2827 JW2795
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B N,O-DIDANSYL-L-TYROSINE
C33 H33 N3 O7 S2
LUBOPDUYHWABFG-NDEPHWFRSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
UMP
Query on UMP

A, B 2'-DEOXYURIDINE 5'-MONOPHOSPHATE
DUMP (Synonym)
C9 H13 N2 O8 P
JSRLJPSBLDHEIO-SHYZEUOFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
DDT IC50: 5000 nM (99) BindingDB
Ki: 1800 nM (99) BindingDB

IC50: 5000 nM  BindingMOAD
IC50: 5000 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
CXM
Query on CXM
A, B L-PEPTIDE LINKING C6 H11 N O4 S MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.212
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 53.80 α = 90.00
b = 87.06 β = 90.00
c = 127.46 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-06-22
  • Released Date: 2002-02-08
  • Deposition author(s): Fritz, T.A., Tondi, D., Finer-Moore, J.S., Costi, M.P., Stroud, R.M.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4