Jumping between protein conformers using normal modes

scientific article published on 3 May 2017

Jumping between protein conformers using normal modes is …
instance of (P31):
scholarly articleQ13442814

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P8978DBLP publication IDjournals/jcc/MahajanS17
P356DOI10.1002/JCC.24803
P8608Fatcat IDrelease_wncaadjtlfbtflzpxgj3idr26y
P698PubMed publication ID28470912

P50authorSwapnil MahajanQ45499594
Yves-Henri SanejouandQ96163462
P2093author name stringYves-Henri Sanejouand
P2860cites workEquation of State Calculations by Fast Computing MachinesQ5384234
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Anisotropy of fluctuation dynamics of proteins with an elastic network modelQ33931550
Normal-modes-based prediction of protein conformational changes guided by distance constraintsQ34190122
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Exploring the factors determining the dynamics of different protein foldsQ34616480
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Coarse-grained biomolecular simulation with REACH: realistic extension algorithm via covariance Hessian.Q36129144
Elastic Network Models are Robust to Variations in FormalismQ36178591
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Harmonic dynamics of proteins: normal modes and fluctuations in bovine pancreatic trypsin inhibitorQ37549050
Comparing proteins by their internal dynamics: Exploring structure–function relationships beyond static structural alignmentsQ38064010
On the relationship between low-frequency normal modes and the large-scale conformational changes of proteinsQ38308677
Efficient generation of feasible pathways for protein conformational transitionsQ40213988
Evaluation of Protein Elastic Network Models Based on an Analysis of Collective MotionsQ40291814
ENCoM server: exploring protein conformational space and the effect of mutations on protein function and stabilityQ41488333
Conformational change of proteins arising from normal mode calculationsQ42646780
Simplified normal mode analysis of conformational transitions in DNA-dependent polymerases: the elastic network modelQ42680706
On the potential of normal-mode analysis for solving difficult molecular-replacement problemsQ44811317
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Direct evaluation of thermal fluctuations in proteins using a single-parameter harmonic potentialQ47628195
Building alternate protein structures using the elastic network model.Q47826141
CoDNaS: a database of conformational diversity in the native state of proteinsQ47869917
Flexible multi-scale fitting of atomic structures into low-resolution electron density maps with elastic network normal mode analysis.Q47919295
Analysis of domain motions by approximate normal mode calculationsQ48709850
The open state gating mechanism of gramicidin a requires relative opposed monomer rotation and simultaneous lateral displacementQ50745041
Computation of low-frequency normal modes in macromolecules: improvements to the method of diagonalization in a mixed basis and application to hemoglobinQ51650510
Hinge-bending motion in citrate synthase arising from normal mode calculationsQ52322021
Time dependence of atomic fluctuations in proteins: analysis of local and collective motions in bovine pancreatic trypsin inhibitorQ52714035
Rapid comparison of protein structuresQ56287146
Large Amplitude Elastic Motions in Proteins from a Single-Parameter, Atomic AnalysisQ56688821
Harmonicity in slow protein dynamicsQ58008915
Normal mode analysis as a prerequisite for drug design: Application to matrix metalloproteinases inhibitorsQ58571868
Collective variable description of small-amplitude conformational fluctuations in a globular proteinQ59053026
Why are the low-energy protein normal modes evolutionarily conserved?Q60167432
P433issue18
P304page(s)1622-1630
P577publication date2017-05-03
P1433published inJournal of Computational ChemistryQ3186908
P1476titleJumping between protein conformers using normal modes
P478volume38

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cites work (P2860)
Q91714561A tool for visualizing protein motions in time-resolved crystallography
Q64950753Characterization of Differential Dynamics, Specificity, and Allostery of Lipoxygenase Family Members.
Q90609313Dynamics-function relationship in the catalytic domains of N-terminal acetyltransferases

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