Dynamical spectroscopy and microscopy of proteins in cells

M Gruebele, GJ Pielak - Current Opinion in Structural Biology, 2021 - Elsevier
Highlights•Cells affect macromolecules with steric and 'quinary'interactions.•The crowded
cytoplasm is structured on all length scales.•Charge-hydrophobe patterning is likely …

A new method to experimentally quantify dynamics of initial protein–protein interactions

BR Janakaloti Narayanareddy, NR Allipeta… - Communications …, 2024 - nature.com
Cells run on initiation of protein-protein interactions, which are dynamically tuned spatially
and temporally to modulate cellular events. This tuning can be physical, such as attaching …

A 6-nm ultra-photostable DNA FluoroCube for fluorescence imaging

S Niekamp, N Stuurman, RD Vale - Nature methods, 2020 - nature.com
Photobleaching limits extended imaging of fluorescent biological samples. We developed
DNA-based 'FluoroCubes' that are similar in size to the green fluorescent protein, have …

Motor dynamics underlying cargo transport by pairs of kinesin-1 and kinesin-3 motors

G Arpağ, SR Norris, SI Mousavi, V Soppina… - Biophysical journal, 2019 - cell.com
Intracellular cargo transport by kinesin family motor proteins is crucial for many cellular
processes, particularly vesicle transport in axons and dendrites. In a number of cases, the …

Theoretical analysis of dynamics of kinesin molecular motors

P Xie - ACS omega, 2020 - ACS Publications
Kinesin is a typical molecular motor that can step processively on microtubules powered by
hydrolysis of adenosine triphosphate (ATP) molecules, playing a critical role in intracellular …

Force dependence of unbinding rate of kinesin motor during its processive movement on microtubule

SK Guo, XX Shi, PY Wang, P Xie - Biophysical chemistry, 2019 - Elsevier
Kinesin is a biological molecular motor that can move continuously on microtubule until it
unbinds. Here, we studied computationally the force dependence of the unbinding rate of …

A fluid membrane enhances the velocity of cargo transport by small teams of kinesin-1

Q Li, KF Tseng, SJ King, W Qiu, J Xu - Biophysical Journal, 2018 - cell.com
Kinesin-1 is a major molecular motor driving the fundamental process of transport in live
cells. While the single-molecule functions of kinesin are well characterized, the …

Coordination, cooperation, competition, crowding and congestion of molecular motors: Theoretical models and computer simulations

A Sen, D Chowdhury, A Kunwar - Advances in protein …, 2024 - pubmed.ncbi.nlm.nih.gov
Cytoskeletal motor proteins are biological nanomachines that convert chemical energy into
mechanical work to carry out various functions such as cell division, cell motility, cargo …

Dynamic coordination of two-metal-ions orchestrates λ-exonuclease catalysis

W Hwang, J Yoo, Y Lee, S Park, PL Hoang… - Nature …, 2018 - nature.com
Metal ions at the active site of an enzyme act as cofactors, and their dynamic fluctuations can
potentially influence enzyme activity. Here, we use λ-exonuclease as a model enzyme with …

Competition between physical search and a weak-to-strong transition rate-limits kinesin binding times

T Nguyen, BRJ Narayanareddy… - PLOS Computational …, 2024 - journals.plos.org
The self-organization of cells relies on the profound complexity of protein-protein
interactions. Challenges in directly observing these events have hindered progress toward …