Accurate structure prediction of biomolecular interactions with AlphaFold 3
Josh Abramson
1
,
Jonas Adler
1
,
Jack Dunger
1
,
Richard Evans
1
,
Timothy F G Green
1
,
Alexander Pritzel
1
,
Olaf Ronneberger
1
,
Lindsay Willmore
1
,
Andrew Ballard
1
,
Joshua Bambrick
2
,
Sebastian W. Bodenstein
1
,
David A Evans
1
,
Chia-Chun Hung
2
,
Michael O’Neill
1
,
David Reiman
1
,
Kathryn Tunyasuvunakool
1
,
Zachary Wu
1
,
Akvilė Žemgulytė
1
,
Eirini Arvaniti
3
,
Charles Beattie
3
,
Ottavia Bertolli
3
,
Alex Bridgland
3
,
Alexey Cherepanov
4
,
Miles Congreve
4
,
Alexander I. Cowen-Rivers
3
,
Andrew Cowie
3
,
Michael Figurnov
3
,
Fabian B Fuchs
3
,
Hannah Gladman
3
,
Rishub Jain
3
,
Yousuf A Khan
3, 5
,
Caroline M R Low
4
,
Kuba Perlin
3
,
Anna Potapenko
3
,
Pascal Savy
4
,
Sukhdeep Singh
3
,
Adrian Stecula
4
,
Ashok Thillaisundaram
3
,
Catherine Tong
4
,
Sergei Yakneen
4
,
Ellen Zhong
3, 6
,
Michal Zielinski
3
,
Augustin Žídek
3
,
Victor Bapst
1
,
Pushmeet Kohli
1
,
Max Jaderberg
2
,
D. Hassabis
1, 2
,
John M. Jumper
1
2
Core Contributor, Isomorphic Labs, London, UK
|
4
Isomorphic Labs, London, UK
|
Publication type: Journal Article
Publication date: 2024-05-08
scimago Q1
wos Q1
SJR: 18.288
CiteScore: 78.1
Impact factor: 48.5
ISSN: 00280836, 14764687
PubMed ID:
38718835
Abstract
The introduction of AlphaFold 21 has spurred a revolution in modelling the structure of proteins and their interactions, enabling a huge range of applications in protein modelling and design2–6. Here we describe our AlphaFold 3 model with a substantially updated diffusion-based architecture that is capable of predicting the joint structure of complexes including proteins, nucleic acids, small molecules, ions and modified residues. The new AlphaFold model demonstrates substantially improved accuracy over many previous specialized tools: far greater accuracy for protein–ligand interactions compared with state-of-the-art docking tools, much higher accuracy for protein–nucleic acid interactions compared with nucleic-acid-specific predictors and substantially higher antibody–antigen prediction accuracy compared with AlphaFold-Multimer v.2.37,8. Together, these results show that high-accuracy modelling across biomolecular space is possible within a single unified deep-learning framework.
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Citations from 2024:
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Abramson J. et al. Accurate structure prediction of biomolecular interactions with AlphaFold 3 // Nature. 2024. Vol. 630. No. 8016. pp. 493-500.
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Abramson J. et al. Accurate structure prediction of biomolecular interactions with AlphaFold 3 // Nature. 2024. Vol. 630. No. 8016. pp. 493-500.
Cite this
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TY - JOUR
DO - 10.1038/s41586-024-07487-w
UR - https://www.nature.com/articles/s41586-024-07487-w
TI - Accurate structure prediction of biomolecular interactions with AlphaFold 3
T2 - Nature
AU - Abramson, Josh
AU - Adler, Jonas
AU - Dunger, Jack
AU - Evans, Richard
AU - Green, Timothy F G
AU - Pritzel, Alexander
AU - Ronneberger, Olaf
AU - Willmore, Lindsay
AU - Ballard, Andrew
AU - Bambrick, Joshua
AU - Bodenstein, Sebastian W.
AU - Evans, David A
AU - Hung, Chia-Chun
AU - O’Neill, Michael
AU - Reiman, David
AU - Tunyasuvunakool, Kathryn
AU - Wu, Zachary
AU - Žemgulytė, Akvilė
AU - Arvaniti, Eirini
AU - Beattie, Charles
AU - Bertolli, Ottavia
AU - Bridgland, Alex
AU - Cherepanov, Alexey
AU - Congreve, Miles
AU - Cowen-Rivers, Alexander I.
AU - Cowie, Andrew
AU - Figurnov, Michael
AU - Fuchs, Fabian B
AU - Gladman, Hannah
AU - Jain, Rishub
AU - Khan, Yousuf A
AU - Low, Caroline M R
AU - Perlin, Kuba
AU - Potapenko, Anna
AU - Savy, Pascal
AU - Singh, Sukhdeep
AU - Stecula, Adrian
AU - Thillaisundaram, Ashok
AU - Tong, Catherine
AU - Yakneen, Sergei
AU - Zhong, Ellen
AU - Zielinski, Michal
AU - Žídek, Augustin
AU - Bapst, Victor
AU - Kohli, Pushmeet
AU - Jaderberg, Max
AU - Hassabis, D.
AU - Jumper, John M.
PY - 2024
DA - 2024/05/08
PB - Springer Nature
SP - 493-500
IS - 8016
VL - 630
PMID - 38718835
SN - 0028-0836
SN - 1476-4687
ER -
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@article{2024_Abramson,
author = {Josh Abramson and Jonas Adler and Jack Dunger and Richard Evans and Timothy F G Green and Alexander Pritzel and Olaf Ronneberger and Lindsay Willmore and Andrew Ballard and Joshua Bambrick and Sebastian W. Bodenstein and David A Evans and Chia-Chun Hung and Michael O’Neill and David Reiman and Kathryn Tunyasuvunakool and Zachary Wu and Akvilė Žemgulytė and Eirini Arvaniti and Charles Beattie and Ottavia Bertolli and Alex Bridgland and Alexey Cherepanov and Miles Congreve and Alexander I. Cowen-Rivers and Andrew Cowie and Michael Figurnov and Fabian B Fuchs and Hannah Gladman and Rishub Jain and Yousuf A Khan and Caroline M R Low and Kuba Perlin and Anna Potapenko and Pascal Savy and Sukhdeep Singh and Adrian Stecula and Ashok Thillaisundaram and Catherine Tong and Sergei Yakneen and Ellen Zhong and Michal Zielinski and Augustin Žídek and Victor Bapst and Pushmeet Kohli and Max Jaderberg and D. Hassabis and John M. Jumper and others},
title = {Accurate structure prediction of biomolecular interactions with AlphaFold 3},
journal = {Nature},
year = {2024},
volume = {630},
publisher = {Springer Nature},
month = {may},
url = {https://www.nature.com/articles/s41586-024-07487-w},
number = {8016},
pages = {493--500},
doi = {10.1038/s41586-024-07487-w}
}
Cite this
MLA
Copy
Abramson, Josh, et al. “Accurate structure prediction of biomolecular interactions with AlphaFold 3.” Nature, vol. 630, no. 8016, May. 2024, pp. 493-500. https://www.nature.com/articles/s41586-024-07487-w.