Accurate Macromolecular Complex Modeling for Cryo-EM with CryoZeta

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Authors: Zicong Zhang, Shu Li, Farhanaz Farheen, Yuki Kagaya, Boyuan Liu, Nabil Ibtehaz, Genki Terashi, Tsukasa Nakamura, Han Zhu, Kafi Khan, Yuanyuan Zhang, Daisuke Kihara
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Abstract

We prepared CryoZeta benchmark dataset to evaluate structure modeling of proteins and nucleic acids in cryo-EM maps. The dataset consists of 4 subsets organized by model variants and benchmark datasets: CryoZeta (Structures of CryoZeta on 200 test entries) CryoZeta-Interpolate (Structures of CryoZeta-Interpolate on 200 test entries) CryoZeta-Combine (Structures of CryoZeta-Combine on 200 test entries) CryoZeta_large_complex (Structures of CryoZeta on 51 large complex test entries) Each directory contains CIF format models generated by the corresponding CryoZeta variants, named as CryoZeta_[PDBID].cif, which correspond to PDB entries (e.g., CryoZeta_9mk9.cif for 9MK9 in PDB).

Fields of Study & Subjects

Advanced Electron Microscopy Techniques and Applications Protein Structure and Dynamics Enzyme Structure and Function

Publication details

Journal / source
Zenodo (CERN European Organization for Nuclear Research)
Publication date
1 January 2026
Language
EN
Document type
Dataset