ColabFold: making protein folding accessible to all

Milot Mirdita; Konstantin Schütze; Yoshitaka Moriwaki; Lim Heo; Sergey Ovchinnikov; Martin Steinegger

doi:10.1038/s41592-022-01488-1

ColabFold: making protein folding accessible to all

Nat Methods. 2022 Jun;19(6):679-682. doi: 10.1038/s41592-022-01488-1. Epub 2022 May 30.

Authors

Milot Mirdita^#¹, Konstantin Schütze², Yoshitaka Moriwaki^{3

4}, Lim Heo⁵, Sergey Ovchinnikov^#^{6

7}, Martin Steinegger^#^{8

9

10}

Affiliations

¹ Quantitative and Computational Biology, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany. milot.mirdita@mpinat.mpg.de.
² School of Biological Sciences, Seoul National University, Seoul, South Korea.
³ Department of Biotechnology, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Tokyo, Japan.
⁴ Collaborative Research Institute for Innovative Microbiology, The University of Tokyo, Tokyo, Japan.
⁵ Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI, USA.
⁶ JHDSF Program, Harvard University, Cambridge, MA, USA. so@fas.harvard.edu.
⁷ FAS Division of Science, Harvard University, Cambridge, MA, USA. so@fas.harvard.edu.
⁸ School of Biological Sciences, Seoul National University, Seoul, South Korea. martin.steinegger@snu.ac.kr.
⁹ Artificial Intelligence Institute, Seoul National University, Seoul, South Korea. martin.steinegger@snu.ac.kr.
¹⁰ Institute of Molecular Biology and Genetics, Seoul National University, Seoul, South Korea. martin.steinegger@snu.ac.kr.

^# Contributed equally.

Abstract

ColabFold offers accelerated prediction of protein structures and complexes by combining the fast homology search of MMseqs2 with AlphaFold2 or RoseTTAFold. ColabFold's 40-60-fold faster search and optimized model utilization enables prediction of close to 1,000 structures per day on a server with one graphics processing unit. Coupled with Google Colaboratory, ColabFold becomes a free and accessible platform for protein folding. ColabFold is open-source software available at https://github.com/sokrypton/ColabFold and its novel environmental databases are available at https://colabfold.mmseqs.com .

Publication types

Research Support, N.I.H., Extramural
Research Support, U.S. Gov't, Non-P.H.S.
Research Support, Non-U.S. Gov't

MeSH terms

Computers
Databases, Factual
Protein Folding*
Proteins
Software*

Substances

Proteins

Abstract

Publication types

MeSH terms

Substances

Grants and funding