3J7M: Virus Model Of Brome Mosaic Virus (first Half Data Set)

Advances in electron cryo-microscopy have enabled structure determination of macromolecules at near-atomic resolution. However, structure determination, even using de novo methods, remains susceptible to model bias and overfitting. Here we describe a complete workflow for data acquisition, image processing, all-atom modelling and validation of brome mosaic virus, an RNA virus. Data were collected with a direct electron detector in integrating mode and an exposure beyond the traditional radiation damage limit. The final density map has a resolution of 3.8 A as assessed by two independent data sets and maps. We used the map to derive an all-atom model with a newly implemented real-space optimization protocol. The validity of the model was verified by its match with the density map and a previous model from X-ray crystallography, as well as the internal consistency of models from independent maps. This study demonstrates a practical approach to obtain a rigorously validated atomic resolution electron cryo-microscopy structure.
PDB ID: 3J7MDownload
MMDB ID: 122972
PDB Deposition Date: 2014/7/18
Updated in MMDB: 2014/09
Experimental Method:
electron microscopy
Resolution: 3.8  Å
Source Organism:
Similar Structures:
Biological Unit for 3J7M: 180-meric
Molecular Components in 3J7M
Label Count Molecule
Proteins (180 molecules)
Capsid Protein(Gene symbol: BMVs3gp2)
Molecule annotation
* Click molecule labels to explore molecular sequence information.

Citing MMDB