De novo protein design, a retrospective

IV Korendovych, WF DeGrado - Quarterly reviews of biophysics, 2020 - cambridge.org
Proteins are molecular machines whose function depends on their ability to achieve
complex folds with precisely defined structural and dynamic properties. The rational design …

De novo metalloprotein design

MJ Chalkley, SI Mann, WF DeGrado - Nature Reviews Chemistry, 2022 - nature.com
Natural metalloproteins perform many functions—ranging from sensing to electron transfer
and catalysis—in which the position and property of each ligand and metal are dictated by …

Protein design: toward functional metalloenzymes

F Yu, VM Cangelosi, ML Zastrow, M Tegoni… - Chemical …, 2014 - ACS Publications
Protein design is a valuable tool for understanding the fundamental factors that dictate
protein structure and function. The field of protein design has seen significant progress over …

Catalysis and Electron Transfer in De Novo Designed Metalloproteins

KJ Koebke, TBJ Pinter, WC Pitts, VL Pecoraro - Chemical reviews, 2022 - ACS Publications
One of the hallmark advances in our understanding of metalloprotein function is showcased
in our ability to design new, non-native, catalytically active protein scaffolds. This review …

A defined structural unit enables de novo design of small-molecule–binding proteins

NF Polizzi, WF DeGrado - Science, 2020 - science.org
The de novo design of proteins that bind highly functionalized small molecules represents a
great challenge. To enable computational design of binders, we developed a unit of protein …

De novo design of four-helix bundle metalloproteins: One scaffold, diverse reactivities

A Lombardi, F Pirro, O Maglio, M Chino… - Accounts of chemical …, 2019 - ACS Publications
Conspectus De novo protein design represents an attractive approach for testing and
extending our understanding of metalloprotein structure and function. Here, we describe our …

Design and engineering of artificial oxygen-activating metalloenzymes

F Nastri, M Chino, O Maglio… - Chemical Society …, 2016 - pubs.rsc.org
Many efforts are being made in the design and engineering of metalloenzymes with catalytic
properties fulfilling the needs of practical applications. Progress in this field has recently …

De novo design of a hyperstable non-natural protein–ligand complex with sub-Å accuracy

NF Polizzi, Y Wu, T Lemmin, AM Maxwell, SQ Zhang… - Nature …, 2017 - nature.com
Protein catalysis requires the atomic-level orchestration of side chains, substrates and
cofactors, and yet the ability to design a small-molecule-binding protein entirely from first …

An artificial di-iron oxo-protein with phenol oxidase activity

M Faiella, C Andreozzi, RTM De Rosales… - Nature chemical …, 2009 - nature.com
Here we report the de novo design and NMR structure of a four-helical bundle di-iron protein
with phenol oxidase activity. The introduction of the cofactor-binding and phenol-binding …

Designing functional metalloproteins: From structural to catalytic metal sites

ML Zastrow, VL Pecoraro - Coordination Chemistry Reviews, 2013 - Elsevier
Metalloenzymes efficiently catalyze some of the most important and difficult reactions in
nature. For many years, coordination chemists have effectively used small molecule models …