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visual molecular dynamics 1.9.2 software package  (Molecular Dynamics Inc)

 
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    Structured Review

    Molecular Dynamics Inc visual molecular dynamics 1.9.2 software package
    Visual Molecular Dynamics 1.9.2 Software Package, supplied by Molecular Dynamics Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/visual+molecular+dynamics+1%2E9%2E2+software+package/namd2/pmc08694067-209-19-42
    Average 90 stars, based on 1 article reviews
    visual molecular dynamics 1.9.2 software package - by Bioz Stars, 2026-09
    90/100 stars

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    Software:

    Article Title: Structural dynamics in the evolution of a bilobed protein scaffold
    Article Snippet: Phylogenetic, structural analysis, alignments, and protein visualization were accomplished by widely accepted procedures via freely available software or servers: Structure similarity search-PDB webserver ( , ), PDBeFold , Dali server , multidimensional QR factorization of multiple sequence and structure alignments ( )/visual molecular dynamics 1.9.2 software package , Protein blast , DynDom domain motion server ( , ), Protein Interaction calculator webserver , EPIC server ( , ), ECOD database , ConSurf-DB server ( , ), SWISS-MODEL server , and PyMOL (The PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC). smFRET experiments were performed with a custom-made confocal ALEX microscope that has been previously described in the literature ( , ) and HDX-MS by a nanoACQUITY Ultra Performance Liquid Chromatography System with HDX technology (Waters, United Kingdom).

    Sequencing:

    Article Title: Structural dynamics in the evolution of a bilobed protein scaffold
    Article Snippet: Phylogenetic, structural analysis, alignments, and protein visualization were accomplished by widely accepted procedures via freely available software or servers: Structure similarity search-PDB webserver ( , ), PDBeFold , Dali server , multidimensional QR factorization of multiple sequence and structure alignments ( )/visual molecular dynamics 1.9.2 software package , Protein blast , DynDom domain motion server ( , ), Protein Interaction calculator webserver , EPIC server ( , ), ECOD database , ConSurf-DB server ( , ), SWISS-MODEL server , and PyMOL (The PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC). smFRET experiments were performed with a custom-made confocal ALEX microscope that has been previously described in the literature ( , ) and HDX-MS by a nanoACQUITY Ultra Performance Liquid Chromatography System with HDX technology (Waters, United Kingdom).

    Microscopy:

    Article Title: Structural dynamics in the evolution of a bilobed protein scaffold
    Article Snippet: Phylogenetic, structural analysis, alignments, and protein visualization were accomplished by widely accepted procedures via freely available software or servers: Structure similarity search-PDB webserver ( , ), PDBeFold , Dali server , multidimensional QR factorization of multiple sequence and structure alignments ( )/visual molecular dynamics 1.9.2 software package , Protein blast , DynDom domain motion server ( , ), Protein Interaction calculator webserver , EPIC server ( , ), ECOD database , ConSurf-DB server ( , ), SWISS-MODEL server , and PyMOL (The PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC). smFRET experiments were performed with a custom-made confocal ALEX microscope that has been previously described in the literature ( , ) and HDX-MS by a nanoACQUITY Ultra Performance Liquid Chromatography System with HDX technology (Waters, United Kingdom).

    Structural Proteomics:

    Article Title: Structural dynamics in the evolution of a bilobed protein scaffold
    Article Snippet: Phylogenetic, structural analysis, alignments, and protein visualization were accomplished by widely accepted procedures via freely available software or servers: Structure similarity search-PDB webserver ( , ), PDBeFold , Dali server , multidimensional QR factorization of multiple sequence and structure alignments ( )/visual molecular dynamics 1.9.2 software package , Protein blast , DynDom domain motion server ( , ), Protein Interaction calculator webserver , EPIC server ( , ), ECOD database , ConSurf-DB server ( , ), SWISS-MODEL server , and PyMOL (The PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC). smFRET experiments were performed with a custom-made confocal ALEX microscope that has been previously described in the literature ( , ) and HDX-MS by a nanoACQUITY Ultra Performance Liquid Chromatography System with HDX technology (Waters, United Kingdom).

    Liquid Chromatography:

    Article Title: Structural dynamics in the evolution of a bilobed protein scaffold
    Article Snippet: Phylogenetic, structural analysis, alignments, and protein visualization were accomplished by widely accepted procedures via freely available software or servers: Structure similarity search-PDB webserver ( , ), PDBeFold , Dali server , multidimensional QR factorization of multiple sequence and structure alignments ( )/visual molecular dynamics 1.9.2 software package , Protein blast , DynDom domain motion server ( , ), Protein Interaction calculator webserver , EPIC server ( , ), ECOD database , ConSurf-DB server ( , ), SWISS-MODEL server , and PyMOL (The PyMOL Molecular Graphics System, Version 2.0 Schrödinger, LLC). smFRET experiments were performed with a custom-made confocal ALEX microscope that has been previously described in the literature ( , ) and HDX-MS by a nanoACQUITY Ultra Performance Liquid Chromatography System with HDX technology (Waters, United Kingdom).



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