Nature Methods

, volume 19 , issue 6 , pages 679-682

ColabFold: making protein folding accessible to all

Milot Mirdita ¹

Konstantin Schütze ²

Y. Moriwaki ^{3, 4}

Lim Heo ⁵

Sergey Ovchinnikov ^{6, 7}

Martin Steinegger ^{2, 8, 9}

Hide authors affiliations Show authors affiliations: 9 affiliations

Quantitative and Computational Biology, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany |

School of Biological Sciences, Seoul National University, Seoul, South Korea |

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, USA |

⁶

JHDSF Program, Harvard University, Cambridge, USA |

⁷

FAS Division of Science, Harvard University, Cambridge, USA |

⁸

Artificial Intelligence Institute, Seoul National University, Seoul, South Korea |

⁹

Institute of Molecular Biology and Genetics, Seoul National University, Seoul, South Korea |

Publication type: Journal Article

Publication date: 2022-05-30

Springer Nature

Nature Methods

scimago Q1

wos Q1

SJR: 17.251

CiteScore: 49.0

Impact factor: 32.1

ISSN: 15487091, 15487105

DOI: 10.1038/s41592-022-01488-1

Copy DOI

PubMed ID: 35637307

Biochemistry

Molecular Biology

Cell Biology

Biotechnology

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.

Found

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Gushchin Ivan

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Moscow Institute of Physics and Technology

The structure of proteins

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Ryzhykau Yury

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Moscow Institute of Physics and Technology

Joint Institute for Nuclear Research

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Miyata Shinji

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Tokyo University of Agriculture and Technology

5 citations

Vlasov Alexey

🥼 🤝

PhD in Physics and Mathematics

35 publications, 401 citations

h-index: 13

Moscow Institute of Physics and Technology

Research interests

Biophysics

Membrane proteins

Protein crystallization

Small-angle X-ray scattering (Small-angle X-ray scattering)

Structural Biology

5 citations

Bhakat Soumendranath

🥼

37 publications, 737 citations, 10 reviews

h-index: 15

University of Pennsylvania

Washington University in St. Louis

Research interests

Molecular dynamics

4 citations

Sluchanko Nikolai

🥼 🤝

DSc in Biological/biomedical sciences

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h-index: 33

Federal Research Centre “Fundamentals of Biotechnology” of the Russian Academy of Sciences

N. F. Gamaleya National Research Center for Epidemiology and Microbiology of the Ministry of Health of the Russian Federation

Research interests

Protein Structure

Protein-protein interactions

Structural Biology

3 citations

Sokolova Olga

DSc in Biological/biomedical sciences, associate professor, professor of the Russian Academy of Sciences

180 publications, 2 610 citations

h-index: 30

Lomonosov Moscow State University

The structure of proteins

Viruses

2 citations

Kireev Igor

DSc in Biological/biomedical sciences

108 publications, 2 066 citations, 30 reviews

h-index: 22

Lomonosov Moscow State University

2 citations

Arkhipov Sergey

39 publications, 313 citations

h-index: 11

Boreskov Institute of Catalysis of the Siberian Branch of the Russian Academy of Sciences

2 citations

Pyatibratov Mikhail

29 publications, 464 citations

h-index: 12

2 citations

Xu H. Eric

PhD

725 publications, 21 211 citations, 8 reviews

h-index: 71

Shanghai Institute of Materia Medica, Chinese Academy of Sciences

2 citations

Golovin Andrey

🥼 🤝

DSc in Chemistry

98 publications, 1 339 citations

h-index: 20

Lomonosov Moscow State University

Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry of the Russian Academy of Sciences

2 citations

Shaposhnikov Leonid

12 publications, 39 citations, 3 reviews

h-index: 5

Lomonosov Moscow State University

Federal Research Centre “Fundamentals of Biotechnology” of the Russian Academy of Sciences

2 citations

Ahmad Ashfaq

🥼 🤝

32 publications, 366 citations, 4 reviews

h-index: 9

Hazara University

2 citations

Balleza Daniel

PhD in Biological/biomedical sciences, associate professor, professor of the Mexican Academy of Sciences

28 publications, 293 citations, 19 reviews

h-index: 8

2 citations

Kono Yohei

🥼

18 publications, 186 citations, 9 reviews

h-index: 8

Kanazawa University

Tokyo Institute of Technology

Research interests

Regenerative medicine

Stem cells

2 citations

Nagata Satoshi

50 publications, 1 743 citations, 2 reviews

h-index: 26

National Institute of Biomedical Innovation, Health and Nutrition

2 citations

Ivaylo Ivanov

50 publications, 2 182 citations, 26 reviews

h-index: 28

Georgia State University

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GOST Copy

Mirdita M. et al. ColabFold: making protein folding accessible to all // Nature Methods. 2022. Vol. 19. No. 6. pp. 679-682.

GOST all authors (up to 50) Copy

Mirdita M., Schütze K., Moriwaki Y., Heo L., Ovchinnikov S., Steinegger M. ColabFold: making protein folding accessible to all // Nature Methods. 2022. Vol. 19. No. 6. pp. 679-682.

RIS |

Cite this

RIS Copy

TY - JOUR

DO - 10.1038/s41592-022-01488-1

UR - https://www.nature.com/articles/s41592-022-01488-1

TI - ColabFold: making protein folding accessible to all

T2 - Nature Methods

AU - Mirdita, Milot

AU - Schütze, Konstantin

AU - Moriwaki, Y.

AU - Heo, Lim

AU - Ovchinnikov, Sergey

AU - Steinegger, Martin

PY - 2022

DA - 2022/05/30

PB - Springer Nature

SP - 679-682

IS - 6

VL - 19

PMID - 35637307

SN - 1548-7091

SN - 1548-7105

ER -

BibTex |

Cite this

BibTex (up to 50 authors) Copy

@article{2022_Mirdita,

author = {Milot Mirdita and Konstantin Schütze and Y. Moriwaki and Lim Heo and Sergey Ovchinnikov and Martin Steinegger},

title = {ColabFold: making protein folding accessible to all},

journal = {Nature Methods},

year = {2022},

volume = {19},

publisher = {Springer Nature},

month = {may},

url = {https://www.nature.com/articles/s41592-022-01488-1},

number = {6},

pages = {679--682},

doi = {10.1038/s41592-022-01488-1}

}

MLA

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MLA Copy

Mirdita, Milot, et al. “ColabFold: making protein folding accessible to all.” Nature Methods, vol. 19, no. 6, May. 2022, pp. 679-682. https://www.nature.com/articles/s41592-022-01488-1.

Publisher

Springer Nature

Journal

Nature Methods

scimago Q1

wos Q1

SJR

17.251

CiteScore

49.0

Impact factor

32.1

ISSN

15487091 (Print)

15487105 (Electronic)

Profiles

Martin Steinegger