1HJG

Alteration of the co-substrate selectivity of deacetoxycephalosporin C synthase: The role of arginine-258


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.225 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Alteration of the 2-Oxoacid Cosubstrate Selectivity in Deacetoxycephalosporin C Synthase: The Role of Arginine-258

Lee, H.J.Lloyd, M.D.Harlos, K.Clifton, I.J.Baldwin, J.E.Schofield, C.J.

(2001) J.Biol.Chem. 276: 18290

  • DOI: 10.1074/jbc.M100085200
  • Primary Citation of Related Structures:  1HJF

  • PubMed Abstract: 
  • Deacetoxycephalosporin C synthase is an iron(II) 2-oxoglutaratedependent oxygenase that catalyzes the oxidative ring-expansion of penicillin N to deacetoxycephalosporin C. The wild-type enzyme is only able to efficiently utilize 2-oxoglutarate and 2- ...

    Deacetoxycephalosporin C synthase is an iron(II) 2-oxoglutaratedependent oxygenase that catalyzes the oxidative ring-expansion of penicillin N to deacetoxycephalosporin C. The wild-type enzyme is only able to efficiently utilize 2-oxoglutarate and 2-oxoadipate as a 2-oxoacid co-substrate. Mutation of arginine 258, the side chain of which forms an electrostatic interaction with the 5-carboxylate of the 2-oxoglutarate co-substrate, to a glutamine residue reduced activity to about 5% of the wild-type enzyme with 2-oxoglutarate. However, other aliphatic 2-oxoacids, which were not co-substrates for the wild-type enzyme, were utilized by the R258Q mutant. These 2-oxoacids "rescued" catalytic activity to the level observed for the wild-type enzyme as judged by penicillin N and G conversion. These co-substrates underwent oxidative decarboxylation as observed for 2-oxoglutarate in the normal reaction with the wild-type enzyme. Crystal structures of the iron(II)- 2-oxo-3-methylbutanoate (1.5 A), and iron(II)-2-oxo-4-methylpentanoate (1.6 A) enzyme complexes were obtained, which reveal the molecular basis for this "chemical co-substrate rescue" and help to rationalize the co-substrate selectivity of 2-oxoglutaratedependent oxygenases.


    Related Citations: 
    • Studies on the Active Site of Deacetoxycephalosporin C Synthase
      Lloyd, M.D.,Lee, H.J.,Harlos, K.,Zhang, Z.H.,Baldwin, J.E.,Schofield, C.J.,Charnock, J.M.,Garner, C.D.,Hara, T.,Van Scheltinga, A.C.T.,Valegard, K.,Viklund, J.A.C.,Hajdu, J.,Andersson, I.,Danielsson, A.,Bhikhabhai, R.
      (1999) J.Mol.Biol. 287: 943


    Organizational Affiliation

    Oxford Centre for Molecular Sciences and the Dyson Perrins Laboratory, South Parks Road, Oxford OX1 3QY, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
DEACETOXYCEPHALOSPORIN C SYNTHASE
A
311Streptomyces clavuligerus (strain ATCC 27064 / DSM 738 / JCM 4710 / NBRC 13307 / NCIMB 12785 / NRRL 3585 / VKM Ac-602)Gene Names: cefE
EC: 1.14.20.1
Find proteins for P18548 (Streptomyces clavuligerus (strain ATCC 27064 / DSM 738 / JCM 4710 / NBRC 13307 / NCIMB 12785 / NRRL 3585 / VKM Ac-602))
Go to UniProtKB:  P18548
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FE2
Query on FE2

Download SDF File 
Download CCD File 
A
FE (II) ION
Fe
CWYNVVGOOAEACU-UHFFFAOYSA-N
 Ligand Interaction
KIV
Query on KIV

Download SDF File 
Download CCD File 
A
3-METHYL-2-OXOBUTANOIC ACID
ALPHA-KETOISOVALERIC ACID; KETOVALINE
C5 H8 O3
QHKABHOOEWYVLI-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.225 
  • Space Group: H 3
Unit Cell:
Length (Å)Angle (°)
a = 107.100α = 90.00
b = 107.100β = 90.00
c = 70.858γ = 120.00
Software Package:
Software NamePurpose
CNSphasing
SCALAdata scaling
CNSrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-06-01
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance