RT Journal Article
SR Electronic
T1 How antiporters exchange substrates across the cell membrane? An atomic-level description of the complete exchange cycle in NarK
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2020.06.02.130773
DO 10.1101/2020.06.02.130773
A1 Jiangyan Feng
A1 Balaji Selvam
A1 Diwakar Shukla
YR 2020
UL http://biorxiv.org/content/early/2020/06/03/2020.06.02.130773.abstract
AB Major facilitator superfamily (MFS) proteins operate via three different mechanisms: uniport, symport, and antiport. Despite extensive investigations, molecular understanding of antiporters is less advanced than other transporters due to the complex coupling between two substrates and the lack of distinct structures. We employ extensive (~300 μs) all-atom molecular dynamics simulations to dissect the complete substrate exchange cycle of the bacterial antiporter, NarK. We show that paired basic residues in the binding site prevent the closure of unbound protein and ensure the exchange of two substrates. Conformational transition only occurs in the presence of substrate, which weakens the electrostatic repulsion and stabilizes the transporter by ~1.5 kcal/mol. Furthermore, we propose a state-dependent substrate exchange model, in which the relative spacing between the paired basic residues determines whether and bind simultaneously or sequentially. Overall, this work presents a general working model for the antiport mechanism within MFS family.Competing Interest StatementThe authors have declared no competing interest.