7YCD image
Entry Detail
PDB ID:
7YCD
Keywords:
LYASE
Title:
HYDROXYNITRILE LYASE FROM THE MILLIPEDE, Oxidus gracilis bound with (R)-(+)-ALPHA-HYDROXYBENZENE-ACETONITRILE
Biological Source:
Source Organism:
Oxidus gracilis
Host Organism:
Escherichia coli
PDB Version:
Deposition Date:
2022-07-01
Release Date:
2024-01-24
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.01 Å
R-Value Free:
0.23
R-Value Work:
0.20
Space Group:
P 63
7YCD validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Description:Hydroxynitrile lyase
Chain IDs:A, B, C, D
Chain Length:184
Number of Molecules:4
Biological Source:Oxidus gracilis
UniProt ID:A0A2Z5XCT7
Ligand Molecules
MXN
SO4
Primary Citation
Structure-Based Site-Directed Mutagenesis of Hydroxynitrile Lyase from Cyanogenic Millipede, Oxidus gracilis for Hydrocyanation and Henry Reactions.
Chembiochem 25 e202400118 e202400118 (2024)
PMID: 38526556 DOI: 10.1002/cbic.202400118

Abstact

Hydroxynitrile lyase (HNL) from the cyanogenic millipede Oxidus gracillis (OgraHNL) is a crucial enzyme in the cyanogenesis pathway. Here, the crystal structures of OgraHNL complexed with sulfate, benzaldehyde (BA), (R)-mandelonitrile ((R)-Man), (R)-2-chloromandelonitrile ((R)-2-Cl-Man), and acetone cyanohydrin (ACN) were solved at 1.6, 1.7, 2.3, 2.1, and 2.0 Å resolutions, respectively. The structure of OgraHNL revealed that it belonged to the lipocalin superfamily. Based on this structure, positive variants were designed to further improve the catalytic activity and enantioselectivity of the enzyme for asymmetric hydrocyanation and Henry reactions.

Legend

Protein

Chemical

Disease

Primary Citation of related structures
7YCD