Protein design: From the aspect of water solubility and stability
Water solubility and structural stability are key merits for proteins defined by the primary
sequence and 3D-conformation. Their manipulation represents important aspects of the …
sequence and 3D-conformation. Their manipulation represents important aspects of the …
Recent advances in de novo protein design: Principles, methods, and applications
X Pan, T Kortemme - Journal of Biological Chemistry, 2021 - ASBMB
The computational de novo protein design is increasingly applied to address a number of
key challenges in biomedicine and biological engineering. Successes in expanding …
key challenges in biomedicine and biological engineering. Successes in expanding …
De novo design of protein structure and function with RFdiffusion
There has been considerable recent progress in designing new proteins using deep-
learning methods,,,,,,,–. Despite this progress, a general deep-learning framework for protein …
learning methods,,,,,,,–. Despite this progress, a general deep-learning framework for protein …
Scaffolding protein functional sites using deep learning
The binding and catalytic functions of proteins are generally mediated by a small number of
functional residues held in place by the overall protein structure. Here, we describe deep …
functional residues held in place by the overall protein structure. Here, we describe deep …
Diffusion probabilistic modeling of protein backbones in 3d for the motif-scaffolding problem
Construction of a scaffold structure that supports a desired motif, conferring protein function,
shows promise for the design of vaccines and enzymes. But a general solution to this motif …
shows promise for the design of vaccines and enzymes. But a general solution to this motif …
Broadly applicable and accurate protein design by integrating structure prediction networks and diffusion generative models
There has been considerable recent progress in designing new proteins using deep
learning methods–. Despite this progress, a general deep learning framework for protein …
learning methods–. Despite this progress, a general deep learning framework for protein …
De novo design of modular and tunable protein biosensors
Naturally occurring protein switches have been repurposed for the development of
biosensors and reporters for cellular and clinical applications. However, the number of such …
biosensors and reporters for cellular and clinical applications. However, the number of such …
Machine learning for functional protein design
Recent breakthroughs in AI coupled with the rapid accumulation of protein sequence and
structure data have radically transformed computational protein design. New methods …
structure data have radically transformed computational protein design. New methods …
A brief history of de novo protein design: minimal, rational, and computational
DN Woolfson - Journal of Molecular Biology, 2021 - Elsevier
Protein design has come of age, but how will it mature? In the 1980s and the 1990s, the
primary motivation for de novo protein design was to test our understanding of the …
primary motivation for de novo protein design was to test our understanding of the …
De novo metalloprotein design
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 …
and catalysis—in which the position and property of each ligand and metal are dictated by …