9OGK
Refinement of PDB-3J5R against EMD-8117 using EMAN2
Summary for 9OGK
| Entry DOI | 10.2210/pdb9ogk/pdb |
| EMDB information | 8117 |
| Descriptor | Transient receptor potential cation channel subfamily V member 1 (1 entity in total) |
| Functional Keywords | trpv1, membrane protein |
| Biological source | Rattus norvegicus (Norway rat) |
| Total number of polymer chains | 4 |
| Total formula weight | 380223.59 |
| Authors | |
| Primary citation | Chen, M. Building molecular model series from heterogeneous CryoEM structures using Gaussian mixture models and deep neural networks. Commun Biol, 8:798-798, 2025 Cited by PubMed Abstract: Cryogenic electron microscopy (CryoEM) produces structures of macromolecules at near-atomic resolution. However, building molecular models with good stereochemical geometry from those structures can be challenging and time-consuming, especially when many structures are obtained from datasets with conformational heterogeneity. Here we present a model refinement protocol that automatically generates series of molecular models from CryoEM datasets, which describe the dynamics of the macromolecular system and have near-perfect geometry scores. This method makes it easier to interpret the movement of the protein complex from heterogeneity analysis and to compare the structural dynamics observed from CryoEM data with results from other experimental and simulation techniques. PubMed: 40415012DOI: 10.1038/s42003-025-08202-9 PDB entries with the same primary citation |
| Experimental method | ELECTRON MICROSCOPY (4.2 Å) |
Structure validation
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