1C9D

CRYSTAL STRUCTURE OF THE COMPLEX OF BACTERIAL TRYPTOPHAN SYNTHASE WITH THE TRANSITION STATE ANALOGUE INHIBITOR 4-(2-HYDROXY-4-FLUOROPHENYLTHIO)-BUTYLPHOSPHONIC ACID

Structural Biology Knowledgebase: 1C9D SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.269
  • R-Value Work: 0.211

Literature

Macromolecules
Sequence Display for 1C9D

Classification: LYASE

Total Structure Weight: 72236.74

Macromolecule Entities
Molecule Chains Length Organism Details
TRYPTOPHAN SYNTHASE (ALPHA CHAIN) A 268 Salmonella enterica EC#: 4.2.1.20 IUBMB
Gene Name(s): trpA STM1727
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
TRYPTOPHAN SYNTHASE (BETA CHAIN) B 397 Salmonella enterica EC#: 4.2.1.20 IUBMB
Gene Name(s): trpB STM1726
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
HF1
Query on HF1

A 4-(2-HYDROXY-4-FLUOROPHENYLTHIO)-BUTYLPHOSPHONIC ACID
C10 H12 F O4 P S
UXOYJQMPYTYCMG-ORCRQEGFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PLP
Query on PLP

B PYRIDOXAL-5'-PHOSPHATE
VITAMIN B6 Phosphate (Synonym)
C8 H10 N O6 P
NGVDGCNFYWLIFO-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

B SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
HF1 N/A in BindingDB
IC50: 499 nM  BindingMOAD
IC50: 499 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.269
  • R-Value Work: 0.211
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 184.22 α = 90.00
b = 60.52 β = 94.43
c = 67.79 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-08-02
  • Released Date: 1999-12-29
  • Deposition author(s): Lolis, E., Sachpatzidis, A.

Revision History

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