7Q36

Crystal structure of KR2 sodium pump rhodopsin pressurized with krypton

Summary for 7Q36

• Entry DOI: 10.2210/pdb7q36/pdb
• Descriptor: Sodium pumping rhodopsin, EICOSANE, HEXANE, ... (7 entities in total)
• Functional Keywords: sodium pump, membrane protein
• Biological source: Dokdonia eikasta
• Total number of polymer chains: 1
• Total formula weight: 39699.10

Authors

Melnikov, I.,Rulev, M.,Astashkin, R.,Kovalev, K.,Carpentier, P.,Gordeliy, V.,Popov, A. (deposition date: 2021-10-27, release date: 2022-04-27, Last modification date: 2024-11-13)

Primary citation

Melnikov, I.,Orekhov, P.,Rulev, M.,Kovalev, K.,Astashkin, R.,Bratanov, D.,Ryzhykau, Y.,Balandin, T.,Bukhdruker, S.,Okhrimenko, I.,Borshchevskiy, V.,Bourenkov, G.,Mueller-Dieckmann, C.,van der Linden, P.,Carpentier, P.,Leonard, G.,Gordeliy, V.,Popov, A.
High-pressure crystallography shows noble gas intervention into protein-lipid interaction and suggests a model for anaesthetic action.
Commun Biol, 5:360-360, 2022

PubMed Abstract: In this work we examine how small hydrophobic molecules such as inert gases interact with membrane proteins (MPs) at a molecular level. High pressure atmospheres of argon and krypton were used to produce noble gas derivatives of crystals of three well studied MPs (two different proton pumps and a sodium light-driven ion pump). The structures obtained using X-ray crystallography showed that the vast majority of argon and krypton binding sites were located on the outer hydrophobic surface of the MPs - a surface usually accommodating hydrophobic chains of annular lipids (which are known structural and functional determinants for MPs). In conformity with these results, supplementary in silico molecular dynamics (MD) analysis predicted even greater numbers of argon and krypton binding positions on MP surface within the bilayer. These results indicate a potential importance of such interactions, particularly as related to the phenomenon of noble gas-induced anaesthesia.

PubMed: 35422073
DOI: 10.1038/s42003-022-03233-y

Experimental method

X-RAY DIFFRACTION (2.6 Å)