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. 2023 Sep 7;6:188. doi: 10.1038/s42004-023-00991-6

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© The Author(s) 2023

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 7 — The single-chain structure prediction process consists of five sequential steps: (1) multiple sequence alignment sampling, (2) template identification, (3) monomer structural model generation, (4) structural model ranking, and (5) Foldseek-based iterative model refinement. If the target is a chain of a protein assembly, the target and other chains in the protein assembly are also fed into the assembly structure prediction module built on top of AlphaFold-Multimer to generate quaternary structures. The tertiary structures of the target are then extracted from the predicted quaternary structures and are added to the structural model pool generated by the single-chain protein structure prediction.