Paramagnetic chemical probes for studying biological macromolecules

Q Miao, C Nitsche, H Orton, M Overhand… - Chemical …, 2022 - ACS Publications
Paramagnetic chemical probes have been used in electron paramagnetic resonance (EPR)
and nuclear magnetic resonance (NMR) spectroscopy for more than four decades. Recent …

An introduction to NMR-based approaches for measuring protein dynamics

IR Kleckner, MP Foster - Biochimica et Biophysica Acta (BBA)-Proteins and …, 2011 - Elsevier
Proteins are inherently flexible at ambient temperature. At equilibrium, they are
characterized by a set of conformations that undergo continuous exchange within a …

CHARMM36m: an improved force field for folded and intrinsically disordered proteins

J Huang, S Rauscher, G Nawrocki, T Ran, M Feig… - Nature …, 2017 - nature.com
The all-atom additive CHARMM36 protein force field is widely used in molecular modeling
and simulations. We present its refinement, CHARMM36m (http://mackerell. umaryland …

CHARMM36 all‐atom additive protein force field: Validation based on comparison to NMR data

J Huang, AD MacKerell Jr - Journal of computational chemistry, 2013 - Wiley Online Library
Protein structure and dynamics can be characterized on the atomistic level with both nuclear
magnetic resonance (NMR) experiments and molecular dynamics (MD) simulations. Here …

Normal mode analysis of biomolecular structures: functional mechanisms of membrane proteins

I Bahar, TR Lezon, A Bakan, IH Shrivastava - Chemical reviews, 2010 - ACS Publications
A polymer chain of N atoms enjoys 3N-6 internal degrees of freedom, which gives rise to
infinitely many conformations. Even a simple model of N) 100 atoms where bond lengths …

Protein dynamics and function from solution state NMR spectroscopy

M Kovermann, P Rogne, M Wolf-Watz - Quarterly reviews of …, 2016 - cambridge.org
It is well-established that dynamics are central to protein function; their importance is
implicitly acknowledged in the principles of the Monod, Wyman and Changeux model of …

New look at hemoglobin allostery

Y Yuan, MF Tam, V Simplaceanu, C Ho - Chemical reviews, 2015 - ACS Publications
Hemoglobin (Hb) is a truly remarkable molecule. Human adult hemoglobin (Hb A) has a
tetrameric structure consisting of two α-chains with 141 amino acids each and two β-chains …

NMR‐based protein potentials

DW Li, R Brüschweiler - Angewandte Chemie, 2010 - infona.pl
So geht es schneller: Ein hocheffizientes Screening neuer Potentiale gegen die
ursprünglichen Moleküldynamik (MD)‐Trajektorien von Testproteinen ermöglicht eine 10 5 …

Expanding the utility of NMR restraints with paramagnetic compounds: background and practical aspects

J Koehler, J Meiler - Progress in nuclear magnetic resonance spectroscopy, 2011 - Elsevier
NMR spectroscopy is one of the most important methods for determining protein structures.
The scientific community is constantly pushing the limits of NMR spectroscopy by …

Picosecond to millisecond structural dynamics in human ubiquitin

K Lindorff-Larsen, P Maragakis, S Piana… - The Journal of …, 2016 - ACS Publications
Human ubiquitin has been extensively characterized using a variety of experimental and
computational methods and has become an important model for studying protein dynamics …