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research article

Modeling Immunity with Rosetta: Methods for Antibody and Antigen Design

Schoeder, Clara T.
•
Schmitz, Samuel
•
Adolf-Bryfogle, Jared
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March 23, 2021
Biochemistry

Structure-based antibody and antigen design has advanced greatly in recent years, due not only to the increasing availability of experimentally determined structures but also to improved computational methods for both prediction and design. Constant improvements in performance within the Rosetta software suite for biomolecular modeling have given rise to a greater breadth of structure prediction, including docking and design application cases for antibody and antigen modeling. Here, we present an overview of current protocols for antibody and antigen modeling using Rosetta and exemplify those by detailed tutorials originally developed for a Rosetta workshop at Vanderbilt University. These tutorials cover antibody structure prediction, docking, and design and antigen design strategies, including the addition of glycans in Rosetta. We expect that these materials will allow novice users to apply Rosetta in their own projects for modeling antibodies and antigens.

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Type
research article
DOI
10.1021/acs.biochem.0c00912
Web of Science ID

WOS:000634545800001

Author(s)
Schoeder, Clara T.
Schmitz, Samuel
Adolf-Bryfogle, Jared
Sevy, Alexander M.
Finn, Jessica A.
Sauer, Marion F.
Bozhanova, Nina G.
Mueller, Benjamin K.
Sangha, Amandeep K.
Bonet, Jaume  
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Date Issued

2021-03-23

Publisher

AMER CHEMICAL SOC

Published in
Biochemistry
Volume

60

Issue

11

Start page

825

End page

846

Subjects

Biochemistry & Molecular Biology

Editorial or Peer reviewed

REVIEWED

Written at

EPFL

EPFL units
LPDI  
Available on Infoscience
May 8, 2021
Use this identifier to reference this record
https://infoscience.epfl.ch/handle/20.500.14299/177942
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