SMOG@ctbp: simplified deployment of structure-based models in GROMACS - Test2 - elhamkhani - TriplyDB

SMOG@ctbp: simplified deployment of structure-based models in GROMACS

SMOG@ctbp: simplified deployment of structure-based models in GROMACS

http://www.wikidata.org/entity/Q33957517

about

Sequence co-evolutionary information is a natural partner to minimally-frustrated models of biomolecular dynamics The origin of minus-end directionality and mechanochemistry of Ncd motors Steric interactions lead to collective tilting motion in the ribosome during mRNA-tRNA translocation Allostery in the ferredoxin protein motif does not involve a conformational switch 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 Protein stability and dynamics modulation: the case of human frataxin Strain Mediated Adaptation Is Key for Myosin Mechanochemistry: Discovering General Rules for Motor Activity 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 Interdomain Contacts Control Native State Switching of RfaH on a Dual-Funneled Landscape Proteins at work: a combined small angle X-RAY scattering and theoretical determination of the multiple structures involved on the protein kinase functional landscape Coevolutionary signals across protein lineages help capture multiple protein conformations.Capturing the mechanical unfolding pathway of a large protein with coiled-coil probes.Evolution, energy landscapes and the paradoxes of protein folding.Genomics-aided structure prediction.Slipknotting upon native-like loop formation in a trefoil knot protein.Magnesium fluctuations modulate RNA dynamics in the SAM-I riboswitch.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 Tracking fluctuation hotspots on the yeast ribosome through the elongation cycle 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 Multi-scaled explorations of binding-induced folding of intrinsically disordered protein inhibitor IA3 to its target enzyme.Consensus among flexible fitting approaches improves the interpretation of cryo-EM data.Order and disorder control the functional rearrangement of influenza hemagglutinin.Promiscuous and specific recognition among ephrins and Eph receptors Exploration of multi-state conformational dynamics and underlying global functional landscape of maltose binding protein.Context-dependent effects of asparagine glycosylation on Pin WW folding kinetics and thermodynamics.Chaperones rescue luciferase folding by separating its domains.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.Frustration in biomolecules Connecting thermal and mechanical protein (un)folding landscapes.Capturing transition paths and transition states for conformational rearrangements in the ribosome.Protein stability at a carbon nanotube interface.

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SMOG@ctbp: simplified deployment of structure-based models in GROMACS

http://www.wikidata.org/entity/Q33957517

description

2010 nî lūn-bûn

@nan

2010 թուականի Յունիսին հրատարակուած գիտական յօդուած

@hyw

2010 թվականի հունիսին հրատարակված գիտական հոդված

@hy

2010年の論文

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2010年論文

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2010年論文

@zh-hant

2010年論文

@zh-hk

2010年論文

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2010年論文

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2010年论文

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name

SMOG@ctbp: simplified deployment of structure-based models in GROMACS

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SMOG@ctbp: simplified deployment of structure-based models in GROMACS

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SMOG@ctbp: simplified deployment of structure-based models in GROMACS

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SMOG@ctbp: simplified deployment of structure-based models in GROMACS

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SMOG@ctbp: simplified deployment of structure-based models in GROMACS

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SMOG@ctbp: simplified deployment of structure-based models in GROMACS

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Nucleic Acids Research

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SMOG@ctbp: simplified deployment of structure-based models in GROMACS

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P2093

Jeffrey K Noel

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

Karissa Y Sanbonmatsu

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

Paul C Whitford

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

P2860

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

Conformational transitions of adenylate kinase: switching by cracking

GROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation

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

High-resolution protein complexes from integrating genomic information with molecular simulation.

Accommodation of aminoacyl-tRNA into the ribosome involves reversible excursions along multiple pathways.

Spin glasses and the statistical mechanics of protein folding

Theory of protein folding.

Mechanical control of the directional stepping dynamics of the kinesin motor.

Flexible fitting of high-resolution x-ray structures into cryoelectron microscopy maps using biased molecular dynamics simulations

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W657-61

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scholarly article

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10.1093/NAR/GKQ498

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Web Server issue

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38

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2010-06-04T00:00:00Z

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44651748

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20525782

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2896113

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