An all-atom structure-based potential for proteins: bridging minimal models with all-atom empirical forcefields. - Test2 - elhamkhani - TriplyDB

An all-atom structure-based potential for proteins: bridging minimal models with all-atom empirical forcefields.

An all-atom structure-based potential for proteins: bridging minimal models with all-atom empirical forcefields.

http://www.wikidata.org/entity/Q30157501

about

Simulation of chaperonin effect on protein folding: a shift from nucleation-condensation to framework mechanism MD Simulations of tRNA and Aminoacyl-tRNA Synthetases: Dynamics, Folding, Binding, and Allostery From residue coevolution to protein conformational ensembles and functional dynamics.Steric interactions lead to collective tilting motion in the ribosome during mRNA-tRNA translocation Head swivel on the ribosome facilitates translocation by means of intra-subunit tRNA hybrid sites Allostery in the ferredoxin protein motif does not involve a conformational switch Allosteric control in a metalloprotein dramatically alters function.Solution and Crystallographic Structures of the Central Region of the Phosphoprotein from Human Metapneumovirus Drastic changes in conformational dynamics of the antiterminator M2-1 regulate transcription efficiency in Pneumovirinae Energy barriers and driving forces in tRNA translocation through the ribosome Multiple routes and milestones in the folding of HIV-1 protease monomer How EF-Tu can contribute to efficient proofreading of aa-tRNA by the ribosome Constructing sequence-dependent protein models using coevolutionary information.The dominant folding route minimizes backbone distortion in SH3.Substrate-specific reorganization of the conformational ensemble of CSK implicates novel modes of kinase function Proteins at work: a combined small angle X-RAY scattering and theoretical determination of the multiple structures involved on the protein kinase functional landscape ModBase, a database of annotated comparative protein structure models and associated resources.Theoretical Insights into the Biophysics of Protein Bi-stability and Evolutionary Switches.High-resolution protein complexes from integrating genomic information with molecular simulation.Slipknotting upon native-like loop formation in a trefoil knot protein.Denaturant-dependent folding of GFP Differences between cotranscriptional and free riboswitch folding Native structure-based modeling and simulation of biomolecular systems per mouse click.Structure-based simulations reveal concerted dynamics of GPCR activation Structure based design of protein linkers for zinc finger nuclease.The ribosome's energy landscape: Recent insights from computation Knotting and unknotting proteins in the chaperonin cage: Effects of the excluded volume Accommodation of aminoacyl-tRNA into the ribosome involves reversible excursions along multiple pathways.SMOG@ctbp: simplified deployment of structure-based models in GROMACS The origin of nonmonotonic complex behavior and the effects of nonnative interactions on the diffusive properties of protein folding Consensus among flexible fitting approaches improves the interpretation of cryo-EM data.Order and disorder control the functional rearrangement of influenza hemagglutinin.Context-dependent effects of asparagine glycosylation on Pin WW folding kinetics and thermodynamics.On the roles of substrate binding and hinge unfolding in conformational changes of adenylate kinase.Importance of electrostatic interactions in the association of intrinsically disordered histone chaperone Chz1 and histone H2A.Z-H2B.Folding and association of a homotetrameric protein complex in an all-atom Go model.The unique cysteine knot regulates the pleotropic hormone leptin.Connecting thermal and mechanical protein (un)folding landscapes.Capturing transition paths and transition states for conformational rearrangements in the ribosome.Analysis of the interaction interfaces of the N-terminal domain from Pseudomonas aeruginosa MutL

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P2860

An all-atom structure-based potential for proteins: bridging minimal models with all-atom empirical forcefields.

http://www.wikidata.org/entity/Q30157501

description

2009 nî lūn-bûn

@nan

2009 թուականի Մայիսին հրատարակուած գիտական յօդուած

@hyw

2009 թվականի մայիսին հրատարակված գիտական հոդված

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2009年の論文

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2009年論文

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2009年論文

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2009年論文

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2009年論文

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2009年論文

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2009年论文

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name

An all-atom structure-based po ...... ll-atom empirical forcefields.

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An all-atom structure-based po ...... ll-atom empirical forcefields.

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type

label

An all-atom structure-based po ...... ll-atom empirical forcefields.

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An all-atom structure-based po ...... ll-atom empirical forcefields.

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An all-atom structure-based po ...... ll-atom empirical forcefields.

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An all-atom structure-based po ...... ll-atom empirical forcefields.

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An all-atom structure-based po ...... ll-atom empirical forcefields.

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P2093

Alexander Schug

http://www.w3.org/2001/XMLSchema#string

Jeffrey K Noel

http://www.w3.org/2001/XMLSchema#string

Kevin Y Sanbonmatsu

http://www.w3.org/2001/XMLSchema#string

Paul C Whitford

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Shachi Gosavi

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P2860

Protein folding funnels: a kinetic approach to the sequence-structure relationship

Conformational transitions of adenylate kinase: switching by cracking

Three-dimensional solution structure of the B domain of staphylococcal protein A: comparisons of the solution and crystal structures

Direct observation of better hydration at the N terminus of an alpha-helix with glycine rather than alanine as the N-cap residue

Three-dimensional structure of the tyrosine kinase c-Src

VMD: visual molecular dynamics

Scalable molecular dynamics with NAMD

Using massively parallel simulation and Markovian models to study protein folding: examining the dynamics of the villin headpiece

Evolutionary information for specifying a protein fold

Pathways to a protein folding intermediate observed in a 1-microsecond simulation in aqueous solution

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430-441

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10.1002/PROT.22253

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2

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75

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23301529

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18837035

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3439813

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