7UDV

Designed pentameric proton channel LLQL

Summary for 7UDV

• Entry DOI: 10.2210/pdb7udv/pdb
• Descriptor: De novo designed proton channel LLQL (2 entities in total)
• Functional Keywords: proton transport, de novo designed, pentameric, membrane protein
• Biological source: synthetic construct
• Total number of polymer chains: 10
• Total formula weight: 30458.30

Authors

Kratochvil, H.T.,Thomaston, J.L.,Liu, L.,DeGrado, W.F. (deposition date: 2022-03-20, release date: 2022-04-06, Last modification date: 2023-10-25)

Primary citation

Kratochvil, H.T.,Watkins, L.C.,Mravic, M.,Thomaston, J.L.,Nicoludis, J.M.,Somberg, N.H.,Liu, L.,Hong, M.,Voth, G.A.,DeGrado, W.F.
Transient water wires mediate selective proton transport in designed channel proteins.
Nat.Chem., 15:1012-1021, 2023

PubMed Abstract: Selective proton transport through proteins is essential for forming and using proton gradients in cells. Protons are conducted along hydrogen-bonded 'wires' of water molecules and polar side chains, which, somewhat surprisingly, are often interrupted by dry apolar stretches in the conduction pathways, inferred from static protein structures. Here we hypothesize that protons are conducted through such dry spots by forming transient water wires, often highly correlated with the presence of the excess protons in the water wire. To test this hypothesis, we performed molecular dynamics simulations to design transmembrane channels with stable water pockets interspersed by apolar segments capable of forming flickering water wires. The minimalist designed channels conduct protons at rates similar to viral proton channels, and they are at least 10-fold more selective for H over Na. These studies inform the mechanisms of biological proton conduction and the principles for engineering proton-conductive materials.

PubMed: 37308712
DOI: 10.1038/s41557-023-01210-4

Experimental method

X-RAY DIFFRACTION (2.4 Å)