2VAV

Crystal structure of deacetylcephalosporin C acetyltransferase (DAC-Soak)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.220 

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This is version 2.0 of the entry. See complete history


Literature

The last step in cephalosporin C formation revealed: crystal structures of deacetylcephalosporin C acetyltransferase from Acremonium chrysogenum in complexes with reaction intermediates.

Lejon, S.Ellis, J.Valegard, K.

(2008) J Mol Biol 377: 935-944

  • DOI: 10.1016/j.jmb.2008.01.047
  • Primary Citation of Related Structures:  
    2VAT, 2VAV, 2VAX

  • PubMed Abstract: 
  • Deacetylcephalosporin C acetyltransferase (DAC-AT) catalyses the last step in the biosynthesis of cephalosporin C, a broad-spectrum beta-lactam antibiotic of large clinical importance. The acetyl transfer step has been suggested to be limiting for cephalosporin C biosynthesis, but has so far escaped detailed structural analysis ...

    Deacetylcephalosporin C acetyltransferase (DAC-AT) catalyses the last step in the biosynthesis of cephalosporin C, a broad-spectrum beta-lactam antibiotic of large clinical importance. The acetyl transfer step has been suggested to be limiting for cephalosporin C biosynthesis, but has so far escaped detailed structural analysis. We present here the crystal structures of DAC-AT in complexes with reaction intermediates, providing crystallographic snapshots of the reaction mechanism. The enzyme is found to belong to the alpha/beta hydrolase class of acetyltransferases, and the structures support previous observations of a double displacement mechanism for the acetyl transfer reaction in other members of this class of enzymes. The structures of DAC-AT reported here provide evidence of a stable acyl-enzyme complex, thus underpinning a mechanism involving acetylation of a catalytic serine residue by acetyl coenzyme A, followed by transfer of the acetyl group to deacetylcephalosporin C through a suggested tetrahedral transition state.


    Organizational Affiliation

    Department of Cell and Molecular Biology, Uppsala University, Biomedical Centre, Box 596, S-751 24 Uppsala, Sweden.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ACETYL-COA--DEACETYLCEPHALOSPORIN C ACETYLTRANSFERASE
A, B, C, D, E, F, G, H, I, J, K, L
A, B, C, D, E, F, G, H, I, J, K, L
444Acremonium chrysogenumMutation(s): 0 
Gene Names: CEFG
EC: 2.3.1.175
UniProt
Find proteins for P39058 (Acremonium chrysogenum)
Explore P39058 
Go to UniProtKB:  P39058
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP39058
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CSC
Query on CSC

Download Ideal Coordinates CCD File 
BA [auth G],
DA [auth H],
FA [auth I],
JA [auth J],
KA [auth K],
BA [auth G],
DA [auth H],
FA [auth I],
JA [auth J],
KA [auth K],
LA [auth L],
M [auth A],
P [auth B],
S [auth C],
U [auth D],
W [auth E],
Z [auth F]
4-(3-ACETOXYMETHYL-2-CARBOXY-8-OXO-5-THIA-1-AZA-BICYCLO[4.2.0]OCT-2-EN-7-YLCARBAMOYL)-1-CARBOXY-BUTYL-AMMONIUM
C16 H22 N3 O8 S
HOKIDJSKDBPKTQ-GLXFQSAKSA-O
 Ligand Interaction
ACT
Query on ACT

Download Ideal Coordinates CCD File 
AA [auth F],
CA [auth G],
EA [auth H],
GA [auth I],
HA [auth I],
AA [auth F],
CA [auth G],
EA [auth H],
GA [auth I],
HA [auth I],
IA [auth I],
MA [auth L],
N [auth A],
O [auth A],
Q [auth B],
R [auth B],
T [auth C],
V [auth D],
X [auth E],
Y [auth E]
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
OAS
Query on OAS
A, B, C, D, E, F, G, H, I, J, K, L
A, B, C, D, E, F, G, H, I, J, K, L
L-PEPTIDE LINKINGC5 H9 N O4SER
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.220 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 122.065α = 90
b = 108.865β = 90.03
c = 195.792γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
REFMACphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-09-23
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 2.0: 2018-12-12
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations