EModelX-Glycan for Cryo-EM Glycan Structure Auto Building
Year: 2026
Type: software
Abstract: # EModelX-Glycan (EModelG) for Cryo-EM Glycan Structure Auto Building **Environment**: `conda env create -f requirement.yml` `conda activate cryomg` **Phenix** Please install phenix by https://www.phenix-online.org/download , and the installation directory (e.g. ./phenix-1.20.1-4487) would be required by EModelG **For GF-NP5 with bond**: `python auto_build.py --task build_bond --phenix_dir ./phenix-1.20.1-4487 --origin_map data/GF-NP5/map_P33-J1422.mrc --map_fn data/GF-NP5/NP5_zone_A_3.mrc --o_link_pdb data/GF-NP5/map_P33-J1422-coot-2_real_space_refined_212.pdb --o_link_site "('A',('H_LIG', 1, ' '))" --cand_num 2000 --resol 2.22` , and find your results at `data/GF-NP5/final_NP5_zone_A_3_conn_with_type_real_space_refined_000.cif` > **Note:** Replace `./phenix-1.20.1-4487` with the path to your own Phenix installation directory. **For GF-NP5 w/o bond**: `python auto_build.py --task no_bond --phenix_dir ./phenix-1.20.1-4487 --map_fn data/GF-NP5/map_P33-J1422.mrc --cand_num 20000 --resol 2.22` , and find your results at `data/GF-NP5/final_map_P33-J1422_initial_real_space_refined_000.cif` > **Note:** Replace `./phenix-1.20.1-4487` with the path to your own Phenix installation directory.
Authors: Chen, Sheng, Huang, Junhao, Yan, Nieng
Institution: Tsinghua University
Language: English
Subfield: Structural Biology
Domain: Life Sciences
Open Access status: green
OpenAlex ID: W7153509854