Graphs of hydrogen-bond networks to dissect protein conformational dynamics
AN Bondar - The Journal of Physical Chemistry B, 2022 - ACS Publications
Dynamic hydrogen bonds and hydrogen-bond networks are ubiquitous in proteins and
protein complexes. Functional roles that have been assigned to hydrogen-bond networks …
protein complexes. Functional roles that have been assigned to hydrogen-bond networks …
[HTML][HTML] EndophilinA-dependent coupling between activity-induced calcium influx and synaptic autophagy is disrupted by a Parkinson-risk mutation
AT Bademosi, M Decet, S Kuenen, C Calatayud… - Neuron, 2023 - cell.com
Neuronal activity causes use-dependent decline in protein function. However, it is unclear
how this is coupled to local quality control mechanisms. We show in Drosophila that the …
how this is coupled to local quality control mechanisms. We show in Drosophila that the …
Probing universal protein dynamics using hydrogen–deuterium exchange mass spectrometry-derived residue-level Gibbs free energy
Hydrogen–deuterium exchange mass spectrometry (HDX-MS) is a powerful technique to
monitor protein intrinsic dynamics. The technique provides high-resolution information on …
monitor protein intrinsic dynamics. The technique provides high-resolution information on …
Evolutionary adaptation of the protein folding pathway for secretability
D Smets, A Tsirigotaki, JH Smit, S Krishnamurthy… - The EMBO …, 2022 - embopress.org
Secretory preproteins of the Sec pathway are targeted post‐translationally and cross cellular
membranes through translocases. During cytoplasmic transit, mature domains remain non …
membranes through translocases. During cytoplasmic transit, mature domains remain non …
[HTML][HTML] Conserved hydrogen-bond motifs of membrane transporters and receptors
Membrane transporters and receptors often rely on conserved hydrogen bonds to assemble
transient paths for ion transfer or long-distance conformational couplings. For transporters …
transient paths for ion transfer or long-distance conformational couplings. For transporters …
[HTML][HTML] Preproteins couple the intrinsic dynamics of SecA to its ATPase cycle to translocate via a catch and release mechanism
Protein machines undergo conformational motions to interact with and manipulate polymeric
substrates. The Sec translocase promiscuously recognizes, becomes activated, and …
substrates. The Sec translocase promiscuously recognizes, becomes activated, and …
Analysis of Enzyme Conformation Dynamics Using Single-Molecule Förster Resonance Energy Transfer (smFRET)
M Huynh, B Sengupta - Biophysica, 2022 - mdpi.com
Single-molecule Förster resonance energy transfer (smFRET) enables the deconvolution of
various conformational substates of biomolecules. Over the past two decades, it has been …
various conformational substates of biomolecules. Over the past two decades, it has been …
Structural dynamics of the functional nonameric type III translocase export gate
Type III protein secretion is widespread in Gram-negative pathogens. It comprises the
injectisome with a surface-exposed needle and an inner membrane translocase. The …
injectisome with a surface-exposed needle and an inner membrane translocase. The …
[HTML][HTML] Algorithm to catalogue topologies of dynamic lipid hydrogen-bond networks
K Karathanou, AN Bondar - Biochimica et Biophysica Acta (BBA) …, 2022 - Elsevier
Lipid membrane interfaces host reactions essential for the functioning of cells. The hydrogen-
bonding environment at the membrane interface is particularly important for binding of …
bonding environment at the membrane interface is particularly important for binding of …
Open, engage, bind, translocate: The multi-level dynamics of bacterial protein translocation
W Chen, EA Komives - Structure, 2021 - cell.com
The bacterial Sec translocase transports unfolded proteins across membranes. In this issue
of Structure, Krishnamurthy et al.(2021) report a nexus of conformational dynamics in the …
of Structure, Krishnamurthy et al.(2021) report a nexus of conformational dynamics in the …