6JDK image
Deposition Date 2019-02-01
Release Date 2019-04-10
Last Version Date 2024-10-23
Entry Detail
PDB ID:
6JDK
Keywords:
Title:
Crystal structure of Baeyer-Villiger monooxygenase from Parvibaculum lavamentivorans
Biological Source:
Method Details:
Experimental Method:
Resolution:
2.50 Å
R-Value Free:
0.26
R-Value Work:
0.20
R-Value Observed:
0.21
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Baeyer-Villiger monooxygenase
Gene (Uniprot):Plav_1781
Chain IDs:A, B
Chain Length:544
Number of Molecules:2
Biological Source:Parvibaculum lavamentivorans (strain DS-1 / DSM 13023 / NCIMB 13966)
Primary Citation
Structural basis for the selective addition of an oxygen atom to cyclic ketones by Baeyer-Villiger monooxygenase from Parvibaculum lavamentivorans.
Biochem. Biophys. Res. Commun. 512 564 570 (2019)
PMID: 30914200 DOI: 10.1016/j.bbrc.2019.03.114

Abstact

Baeyer-Villiger monooxygenase (BVMO) catalyzes insertion of an oxygen atom into aliphatic or cyclic ketones with high regioselectivity. The BVMOs from Parvibaculum lavamentivorans (BVMOParvi) and Oceanicola batsensis (BVMOOcean) are interesting because of their homologies, with >40% sequence identity, and reaction with the same cyclic ketones with a methyl moiety to give different products. The revealed BVMOParvi structure shows that BVMOParvi forms a two-domain structure like other BVMOs. It has two inserted residues, compared with BVMOOcean, that form a bulge near the bound flavin adenine dinucleotide in the active site. Furthermore, this bulge is linked to a nearby α-helix via a disulfide bond, probably restricting access of the bulky methyl group of the substrate to this bulge. Another sequence motif at the entrance of the active site (Ala-Ser in BVMOParvi and Ser-Thr in BVMOOcean) allows a large volume in BVMOParvi. These minute differences may discriminate a substrate orientation in both BVMOs from the initial substrate binding pocket to the final oxygenation site, resulting in the inserted oxygen atom being in different positions of the same substrate.

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