3J9J

Structure of the capsaicin receptor, TRPV1, determined by single particle electron cryo-microscopy

Summary for 3J9J

• Entry DOI: 10.2210/pdb3j9j/pdb
• Related: 3J5P
• EMDB information: 5778
• Descriptor: Transient receptor potential cation channel subfamily V member 1 (1 entity in total)
• Functional Keywords: alpha helical, membrane protein
• Biological source: Rattus norvegicus (rat)
• Cellular location: Cell junction, synapse, postsynaptic cell membrane; Multi-pass membrane protein: O35433
• Total number of polymer chains: 4
• Total formula weight: 268939.81

Authors

Wang, R.Y.-R.,Barad, B.A.,Fraser, J.S.,DiMaio, F. (deposition date: 2015-02-02, release date: 2015-09-02, Last modification date: 2024-02-21)

Primary citation

Barad, B.A.,Echols, N.,Wang, R.Y.,Cheng, Y.,DiMaio, F.,Adams, P.D.,Fraser, J.S.
EMRinger: side chain-directed model and map validation for 3D cryo-electron microscopy.
Nat.Methods, 12:943-946, 2015

PubMed Abstract: Advances in high-resolution cryo-electron microscopy (cryo-EM) require the development of validation metrics to independently assess map quality and model geometry. We report EMRinger, a tool that assesses the precise fitting of an atomic model into the map during refinement and shows how radiation damage alters scattering from negatively charged amino acids. EMRinger (https://github.com/fraser-lab/EMRinger) will be useful for monitoring progress in resolving and modeling high-resolution features in cryo-EM.

PubMed: 26280328
DOI: 10.1038/nmeth.3541

Experimental method

ELECTRON MICROSCOPY (3.275 Å)