Jeffrey Noel
Jeffrey Noel
Max Delbruck Center
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An all‐atom structure‐based potential for proteins: bridging minimal models with all‐atom empirical forcefields
PC Whitford, JK Noel, S Gosavi, A Schug, KY Sanbonmatsu, JN Onuchic
Proteins: Structure, Function, and Bioinformatics 75 (2), 430-441, 2009
SMOG@ ctbp: simplified deployment of structure-based models in GROMACS
JK Noel, PC Whitford, KY Sanbonmatsu, JN Onuchic
Nucleic acids research 38 (suppl_2), W657-W661, 2010
SMOG 2: a versatile software package for generating structure-based models
JK Noel, M Levi, M Raghunathan, H Lammert, RL Hayes, JN Onuchic, ...
PLoS computational biology 12 (3), e1004794, 2016
The shadow map: a general contact definition for capturing the dynamics of biomolecular folding and function
JK Noel, PC Whitford, JN Onuchic
The journal of physical chemistry B 116 (29), 8692-8702, 2012
Chaos in low-dimensional Lotka–Volterra models of competition
JA Vano, JC Wildenberg, MB Anderson, JK Noel, JC Sprott
Nonlinearity 19 (10), 2391, 2006
Slipknotting upon native-like loop formation in a trefoil knot protein
JK Noel, JI Sułkowska, JN Onuchic
Proceedings of the National Academy of Sciences 107 (35), 15403-15408, 2010
Energy landscape of knotted protein folding
JI Sułkowska, JK Noel, JN Onuchic
Proceedings of the National Academy of Sciences 109 (44), 17783-17788, 2012
Magnesium fluctuations modulate RNA dynamics in the SAM-I riboswitch
RL Hayes, JK Noel, U Mohanty, PC Whitford, SP Hennelly, JN Onuchic, ...
Journal of the American Chemical Society 134 (29), 12043-12053, 2012
Structure and assembly of the mitochondrial membrane remodelling GTPase Mgm1
K Faelber, L Dietrich, JK Noel, F Wollweber, AK Pfitzner, A Mühleip, ...
Nature 571 (7765), 429-433, 2019
Coexistence and chaos in complex ecologies
JC Sprott, JA Vano, JC Wildenberg, MB Anderson, JK Noel
Physics Letters A 335 (2-3), 207-212, 2005
The many faces of structure-based potentials: from protein folding landscapes to structural characterization of complex biomolecules
JK Noel, JN Onuchic
Computational Modeling of Biological Systems: From Molecules to Pathways, 31-54, 2012
How EF-Tu can contribute to efficient proofreading of aa-tRNA by the ribosome
JK Noel, PC Whitford
Nature communications 7 (1), 13314, 2016
Knotting a protein in explicit solvent
JK Noel, JN Onuchic, JI Sulkowska
The Journal of Physical Chemistry Letters 4 (21), 3570-3573, 2013
Bacterial Vipp1 and PspA are members of the ancient ESCRT-III membrane-remodeling superfamily
J Liu, M Tassinari, DP Souza, S Naskar, JK Noel, O Bohuszewicz, M Buck, ...
Cell 184 (14), 3660-3673. e18, 2021
Generalized Manning condensation model captures the RNA ion atmosphere
RL Hayes, JK Noel, A Mandic, PC Whitford, KY Sanbonmatsu, U Mohanty, ...
Physical review letters 114 (25), 258105, 2015
Order and disorder control the functional rearrangement of influenza hemagglutinin
X Lin, NR Eddy, JK Noel, PC Whitford, Q Wang, J Ma, JN Onuchic
Proceedings of the National Academy of Sciences 111 (33), 12049-12054, 2014
Knotting pathways in proteins
JI Sułkowska, JK Noel, CA Ramírez-Sarmiento, EJ Rawdon, KC Millett, ...
Biochemical Society Transactions 41 (2), 523-527, 2013
Capturing transition paths and transition states for conformational rearrangements in the ribosome
JK Noel, J Chahine, VBP Leite, PC Whitford
Biophysical journal 107 (12), 2881-2890, 2014
Reduced model captures Mg2+-RNA interaction free energy of riboswitches
RL Hayes, JK Noel, PC Whitford, U Mohanty, KY Sanbonmatsu, ...
Biophysical journal 106 (7), 1508-1519, 2014
Interdomain contacts control native state switching of RfaH on a dual-funneled landscape
CA Ramírez-Sarmiento, JK Noel, SL Valenzuela, I Artsimovitch
PLOS Computational Biology 11 (7), e1004379, 2015
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