3BZM

Crystal Structure of Open form of Menaquinone-Specific Isochorismate Synthase, MenF


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.308 
  • R-Value Work: 0.245 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure of isochorismate synthase in complex with magnesium.

Parsons, J.F.Shi, K.M.Ladner, J.E.

(2008) Acta Crystallogr.,Sect.D 64: 607-610

  • DOI: 10.1107/S0907444908005477
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The electron carrier menaquinone is one of many important bacterial metabolites that are derived from the key intermediate chorismic acid. MenF, the first enzyme in the menaquinone pathway, catalyzes the isomerization of chorismate to isochorismate. ...

    The electron carrier menaquinone is one of many important bacterial metabolites that are derived from the key intermediate chorismic acid. MenF, the first enzyme in the menaquinone pathway, catalyzes the isomerization of chorismate to isochorismate. Here, an improved structure of MenF in a new crystal form is presented. The structure, solved at 2.0 angstroms resolution in complex with magnesium, reveals a well defined closed active site. Existing evidence suggests that the mechanism of the reaction catalyzed by MenF involves nucleophilic attack of a water molecule on the chorismate ring. The structure reveals a well defined water molecule located in an appropriate position for activation by Lys190 and attack on the substrate.


    Organizational Affiliation

    Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, USA. parsonsj@umbi.umd.edu




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Menaquinone-specific isochorismate synthase
A
431Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: menF (yfbA)
EC: 5.4.4.2
Find proteins for P38051 (Escherichia coli (strain K12))
Go to UniProtKB:  P38051
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CIT
Query on CIT

Download SDF File 
Download CCD File 
A
CITRIC ACID
C6 H8 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.308 
  • R-Value Work: 0.245 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 72.370α = 90.00
b = 72.370β = 90.00
c = 164.010γ = 120.00
Software Package:
Software NamePurpose
PHASERphasing
CrystalCleardata collection
PDB_EXTRACTdata extraction
d*TREKdata reduction
d*TREKdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-05-20
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance