8TWU image
Deposition Date 2023-08-21
Release Date 2023-09-20
Last Version Date 2023-09-20
Entry Detail
PDB ID:
8TWU
Keywords:
Title:
Crystal structure of Cytochrome P450 AspB bound to N1-methylated cyclo-L-Trp-L-Pro
Biological Source:
Source Organism:
Streptomyces (Taxon ID: 1883)
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.84 Å
R-Value Free:
0.20
R-Value Work:
0.16
R-Value Observed:
0.16
Space Group:
P 21 21 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome P450 AspB
Chain IDs:A
Chain Length:407
Number of Molecules:1
Biological Source:Streptomyces
Primary Citation
A Ferric-Superoxide Intermediate Initiates P450-Catalyzed Cyclic Dipeptide Dimerization.
J.Am.Chem.Soc. 145 19256 19264 (2023)
PMID: 37611404 DOI: 10.1021/jacs.3c04542

Abstact

The cytochrome P450 (CYP) AspB is involved in the biosynthesis of the diketopiperazine (DKP) aspergilazine A. Tryptophan-linked dimeric DKP alkaloids are a large family of natural products that are found in numerous species and exhibit broad and often potent bioactivity. The proposed mechanisms for C-N bond formation by AspB, and similar C-C bond formations by related CYPs, have invoked the use of a ferryl-intermediate as an oxidant to promote substrate dimerization. Here, the parallel application of steady-state and transient kinetic approaches reveals a very different mechanism that involves a ferric-superoxide species as a primary oxidant to initiate DKP-assembly. Single turnover kinetic isotope effects and a substrate analog suggest the probable nature and site for abstraction. The direct observation of CYP-superoxide reactivity rationalizes the atypical outcome of AspB and reveals a new reaction manifold in heme enzymes.

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