1SOO

ADENYLOSUCCINATE SYNTHETASE INHIBITED BY HYDANTOCIDIN 5'-MONOPHOSPHATE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Work: 0.187 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

The mode of action and the structure of a herbicide in complex with its target: binding of activated hydantocidin to the feedback regulation site of adenylosuccinate synthetase.

Fonne-Pfister, R.Chemla, P.Ward, E.Girardet, M.Kreuz, K.E.Honzatko, R.B.Fromm, H.J.Schar, H.P.Grutter, M.G.Cowan-Jacob, S.W.

(1996) Proc.Natl.Acad.Sci.USA 93: 9431-9436

  • DOI: 10.1073/pnas.93.18.9431
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • (+)-Hydantocidin, a recently discovered natural spironucleoside with potent herbicidal activity, is shown to be a proherbicide that, after phosphorylation at the 5' position, inhibits adenylosuccinate synthetase, an enzyme involved in de novo purine ...

    (+)-Hydantocidin, a recently discovered natural spironucleoside with potent herbicidal activity, is shown to be a proherbicide that, after phosphorylation at the 5' position, inhibits adenylosuccinate synthetase, an enzyme involved in de novo purine synthesis. The mode of binding of hydantocidin 5'-monophosphate to the target enzyme was analyzed by determining the crystal structure of the enzyme-inhibitor complex at 2.6-A resolution. It was found that adenylosuccinate synthetase binds the phosphorylated compound in the same fashion as it does adenosine 5'-monophosphate, the natural feedback regulator of this enzyme. This work provides the first crystal structure of a herbicide-target complex reported to date.


    Related Citations: 
    • Preliminary X-Ray Crystallographic Study of Adenylosuccinate Synthetase from Escherichia Coli
      Serra, M.A.,Bass, M.B.,Fromm, H.J.,Honzatko, R.B.
      (1988) J.Mol.Biol. 200: 753
    • Crystal Structure of Adenylosuccinate Synthetase from Escherichia Coli. Evidence for Convergent Evolution of GTP-Binding Domains
      Poland, B.W.,Silva, M.M.,Serra, M.A.,Cho, Y.,Kim, K.H.,Harris, E.M.,Honzatko, R.B.
      (1993) J.Biol.Chem. 268: 25334
    • Refined Crystal Structures of Unligated Adenylosuccinate Synthetase from Escherichia Coli
      Silva, M.M.,Poland, B.W.,Hoffman, C.R.,Fromm, H.J.,Honzatko, R.B.
      (1995) J.Mol.Biol. 254: 431


    Organizational Affiliation

    Pharmaceutical Division, Ciba-Geigy Ltd., Basel, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ADENYLOSUCCINATE SYNTHETASE
A
431Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: purA (adeK)
EC: 6.3.4.4
Find proteins for P0A7D4 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A7D4
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
A
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
H5P
Query on H5P

Download SDF File 
Download CCD File 
A
HYDANTOCIDIN-5'-PHOSPHATE
C7 H11 N2 O9 P
HVXIMXHBUJADCC-GTBMBKLPSA-N
 Ligand Interaction
BME
Query on BME

Download SDF File 
Download CCD File 
A
BETA-MERCAPTOETHANOL
C2 H6 O S
DGVVWUTYPXICAM-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Work: 0.187 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 70.500α = 90.00
b = 70.500β = 90.00
c = 198.800γ = 90.00
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORphasing
X-PLORrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 1996-05-07 
  • Released Date: 1997-09-04 
  • Deposition Author(s): Cowan-Jacob, S.W.

Revision History 

  • Version 1.0: 1997-09-04
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance
  • Version 1.3: 2018-04-18
    Type: Data collection, Other