8FIB image
Deposition Date 2022-12-16
Release Date 2023-07-05
Last Version Date 2023-10-25
Entry Detail
PDB ID:
8FIB
Keywords:
Title:
Crystal Structure of Erwinia tracheiphila CYP114
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
1.68 Å
R-Value Free:
0.20
R-Value Work:
0.16
R-Value Observed:
0.16
Space Group:
C 2 2 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Cytochrome P450
Gene (Uniprot):SY86_19565
Chain IDs:A
Chain Length:441
Number of Molecules:1
Biological Source:Erwinia tracheiphila PSU-1
Primary Citation
Dual factors required for cytochrome-P450-mediated hydrocarbon ring contraction in bacterial gibberellin phytohormone biosynthesis.
Proc.Natl.Acad.Sci.USA 120 e2221549120 e2221549120 (2023)
PMID: 37339230 DOI: 10.1073/pnas.2221549120

Abstact

Cytochromes P450 (CYPs) are heme-thiolate monooxygenases that prototypically catalyze the insertion of oxygen into unactivated C-H bonds but are capable of mediating more complex reactions. One of the most remarked-upon alternative reactions occurs during biosynthesis of the gibberellin A (GA) phytohormones, involving hydrocarbon ring contraction with coupled aldehyde extrusion of ent-kaurenoic acid to form the first gibberellin intermediate. While the unusual nature of this reaction has long been noted, its mechanistic basis has remained opaque. Building on identification of the relevant CYP114 from bacterial GA biosynthesis, detailed structure-function studies are reported here, including development of in vitro assays as well as crystallographic analyses both in the absence and presence of substrate. These structures provided insight into enzymatic catalysis of this unusual reaction, as exemplified by identification of a key role for the "missing" acid from an otherwise highly conserved acid-alcohol pair of residues. Notably, the results demonstrate that ring contraction requires dual factors, both the use of a dedicated ferredoxin and absence of the otherwise conserved acidic residue, with exclusion of either limiting turnover to just the initiating and more straightforward hydroxylation. The results provide detailed insight into the enzymatic structure-function relationships underlying this fascinating reaction and support the use of a semipinacol mechanism for the unusual ring contraction reaction.

Legend

Protein

Chemical

Disease

Primary Citation of related structures