1st Edition
Normal Mode Analysis Theory and Applications to Biological and Chemical Systems
430 Pages
32 Color & 124 B/W Illustrations
by
Chapman & Hall
432 Pages
by
Chapman & Hall
Also available as eBook on:
Rapid developments in experimental techniques continue to push back the limits in the resolution, size, and complexity of the chemical and biological systems that can be investigated. This challenges the theoretical community to develop innovative methods for better interpreting experimental results. Normal Mode Analysis (NMA) is one such technique. Capable of providing unique insights into the... Read more
Normal mode theory and harmonic potential approximations
Konrad Hinsen
All-atom normal mode calculations of large molecular systems using iterative methods
Liliane Mouawad and David Perahia
The Gaussian network model: Theory and applications
A.J. Radar, Chakra Chennubhotla, Lee-Wei Yang, Ivet Bahar
Normal mode analysis of macromolecules: from enzyme activity site to molecular machines
Guohui Li, Adam Van Wynsbergh, Omar N.A. Demerdash, Qiang Cui
Functional information from slow mode shapes
Yves-Henri Sanejouand
Unveiling molecular mechanisms of biological functions in large macromolecular assemblies using elastic network normal mode analysis
Florence Tama, Charles L. Brooks III
Applications of normal mode analysis in structural refinement of supramolecular complexes
Jianpeng Ma
Normal mode analysis in studying protein motions with x-ray crystallography
George N. Phillips, Jr.
Optimizing the parameters of the Gaussian network model for ATP-binding proteins
Taner Z. Sen, Robert L. Jernigan
Effects of sequence, cyclization, and superhelical stress on the internet motions of DNA
Atsushi Matsumoto, Wilma K. Olson
Symmetry in normal mode analysis of icosahedral viruses
Herman W.T. van Vlijmen
Extension of the normal mode concept: Principal component analysis, jumping-among-minima model, and their applications to experimental data analysis
Akio Kitao
Imaginary-frequency, unstable instantaneous normal modes, the potential energy landscape, and diffusion in liquids
T.Keyes
Driven molecular dynamics for normal modes of biomolecules without the Hessian, and beyond
Martina Kaledin, Alexey L. Kaledin, Alex Brown, and Joel Bowman
Probing vibrational energy relaxation in proteins using normal modes
Hiroshi Fujisaki, Lintao Bu, and John E. Straub
Anharmonic decay of vibrational state in proteins
Xin Yu, David M. Leitner
Collective coordinate approaches to extended conformational sampling
Michael Nilges, Rogher Abseher
Using collective coordinates to guide conformational sampling in atomic simulations
Haiyan Liu, Zhiyong Zhang, Jianbin He, Yunyu Shi
Konrad Hinsen
All-atom normal mode calculations of large molecular systems using iterative methods
Liliane Mouawad and David Perahia
The Gaussian network model: Theory and applications
A.J. Radar, Chakra Chennubhotla, Lee-Wei Yang, Ivet Bahar
Normal mode analysis of macromolecules: from enzyme activity site to molecular machines
Guohui Li, Adam Van Wynsbergh, Omar N.A. Demerdash, Qiang Cui
Functional information from slow mode shapes
Yves-Henri Sanejouand
Unveiling molecular mechanisms of biological functions in large macromolecular assemblies using elastic network normal mode analysis
Florence Tama, Charles L. Brooks III
Applications of normal mode analysis in structural refinement of supramolecular complexes
Jianpeng Ma
Normal mode analysis in studying protein motions with x-ray crystallography
George N. Phillips, Jr.
Optimizing the parameters of the Gaussian network model for ATP-binding proteins
Taner Z. Sen, Robert L. Jernigan
Effects of sequence, cyclization, and superhelical stress on the internet motions of DNA
Atsushi Matsumoto, Wilma K. Olson
Symmetry in normal mode analysis of icosahedral viruses
Herman W.T. van Vlijmen
Extension of the normal mode concept: Principal component analysis, jumping-among-minima model, and their applications to experimental data analysis
Akio Kitao
Imaginary-frequency, unstable instantaneous normal modes, the potential energy landscape, and diffusion in liquids
T.Keyes
Driven molecular dynamics for normal modes of biomolecules without the Hessian, and beyond
Martina Kaledin, Alexey L. Kaledin, Alex Brown, and Joel Bowman
Probing vibrational energy relaxation in proteins using normal modes
Hiroshi Fujisaki, Lintao Bu, and John E. Straub
Anharmonic decay of vibrational state in proteins
Xin Yu, David M. Leitner
Collective coordinate approaches to extended conformational sampling
Michael Nilges, Rogher Abseher
Using collective coordinates to guide conformational sampling in atomic simulations
Haiyan Liu, Zhiyong Zhang, Jianbin He, Yunyu Shi
Biography
Qiang Cui, Ivet Bahar
