1P6B

X-ray structure of phosphotriesterase, triple mutant H254G/H257W/L303T


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.176 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Enhanced degradation of chemical warfare agents through molecular engineering of the phosphotriesterase active site.

Hill, C.M.Li, W.S.Thoden, J.B.Holden, H.M.Raushel, F.M.

(2003) J.Am.Chem.Soc. 125: 8990-8991

  • DOI: 10.1021/ja0358798
  • Primary Citation of Related Structures:  1P6C

  • PubMed Abstract: 
  • The bacterial phosphotriesterase has been utilized as a template for the evolution of improved enzymes for the catalytic decomposition of organophosphate nerve agents. A combinatorial library of active site mutants was constructed by randomizing resi ...

    The bacterial phosphotriesterase has been utilized as a template for the evolution of improved enzymes for the catalytic decomposition of organophosphate nerve agents. A combinatorial library of active site mutants was constructed by randomizing residues His-254, His-257, and Leu-303. The collection of mutant proteins was screened for the ability to hydrolyze a chromogenic analogue of the most toxic stereoisomer of the chemical warfare agent, soman. The mutant H254G/H257W/L303T catalyzed the hydrolysis of the target substrate nearly 3 orders of magnitude faster than the wild-type enzyme. The X-ray crystal structure was solved in the presence and absence of diisopropyl methyl phosphonate. The mutant enzyme was ligated to an additional divalent cation at the active site that was displaced upon the binding of the substrate analogue inhibitor. These studies demonstrate that substantial changes in substrate specificity can be achieved by relatively minor changes to the primary amino acid sequence.


    Organizational Affiliation

    Department of Chemistry, P.O. Box 30012, Texas A&M University, College Station, TX 77842-3012, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Parathion hydrolase
A, B
336Sphingobium fuliginis (strain ATCC 27551)Gene Names: opd
EC: 3.1.8.1
Find proteins for P0A433 (Sphingobium fuliginis (strain ATCC 27551))
Go to UniProtKB:  P0A433
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
EBP
Query on EBP

Download SDF File 
Download CCD File 
A, B
DIETHYL 4-METHYLBENZYLPHOSPHONATE
C12 H19 O3 P
QKGBKPZAXXBLJE-UHFFFAOYSA-N
 Ligand Interaction
EFS
Query on EFS

Download SDF File 
Download CCD File 
B
ETHYL DIHYDROGEN PHOSPHATE
C2 H7 O4 P
ZJXZSIYSNXKHEA-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
KCX
Query on KCX
A, B
L-PEPTIDE LINKINGC7 H14 N2 O4LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.176 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 130.400α = 90.00
b = 91.900β = 90.90
c = 69.700γ = 90.00
Software Package:
Software NamePurpose
TNTrefinement
SAINTdata scaling
TNTphasing
SAINTdata reduction
FRAMBOdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-09-16
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-11
    Type: Refinement description