3DFI image
Deposition Date 2008-06-12
Release Date 2008-07-22
Last Version Date 2024-02-21
Entry Detail
PDB ID:
3DFI
Keywords:
Title:
The crystal structure of antimicrobial reagent A40926 pseudoaglycone deacetylase Dbv21
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.10 Å
R-Value Free:
0.25
R-Value Work:
0.20
R-Value Observed:
0.21
Space Group:
P 41 21 2
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Pseudoaglycone deacetylase Dbv21
Gene (Uniprot):dbv21
Chain IDs:A
Chain Length:270
Number of Molecules:1
Biological Source:Actinoplanes teichomyceticus
Ligand Molecules
Primary Citation
Crystal structures of lipoglycopeptide antibiotic deacetylases: implications for the biosynthesis of a40926 and teicoplanin.
Chem.Biol. 15 533 545 (2008)
PMID: 18559264 DOI: 10.1016/j.chembiol.2008.05.009

Abstact

The lipoglycopeptide antibiotics teicoplanin and A40926 have proven efficacy against Gram-positive pathogens. These drugs are distinguished from glycopeptide antibiotics by N-linked long chain acyl-D-glucosamine decorations that contribute to antibacterial efficacy. During the biosynthesis of lipoglycopeptides, tailoring glycosyltransferases attach an N-acetyl-D-glucosamine to the aglycone, and this N-acetyl-glucosaminyl pseudoaglycone is deacetylated prior to long chain hydrocarbon attachment. Here we present several high-resolution crystal structures of the pseudoaglycone deacetylases from the biosynthetic pathways of teicoplanin and A40926. The cocrystal structure of the teicoplanin pseudoaglycone deacetylase with a fatty acid product provides further insights into the roles of active-site residues, and suggests mechanistic similarities with structurally distinct zinc deacetylases, such as peptidoglycan deacetylase and LpxC. A unique, structurally mobile capping lid, located at the apex of these pseudoaglycone deacetylases, likely serves as a determinant of substrate specificity.

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Primary Citation of related structures