4.7 Article

Biobox: a toolbox for biomolecular modelling

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Chemistry, Multidisciplinary

Mass Photometry of Membrane Proteins

Anna Olerinyova et al.

Summary: This study explores the application of mass photometry (MP) to Integral membrane proteins (IMPs) and membrane-mimetic systems at the single-particle level. By applying MP to amphipathic vehicles and lipid nanodiscs, the research characterizes particle size, sample purity, and heterogeneity, enabling high-resolution studies of membrane-protein structure and interactions. Evidence suggests that using native styrenemaleic acid nanodiscs could reveal new insights into the structure of membrane proteins compared to conventional detergent purification methods.
Article Chemistry, Medicinal

Transmembrane Protein Docking with JabberDock

Lucas S. P. Rudden et al.

Summary: Transmembrane proteins play a crucial role in biological processes, comprising a significant portion of the proteome and drug design targets. However, their structural characteristics pose challenges, leading to a limited representation in structural databases. Existing membrane protein docking algorithms are few and less successful compared to soluble proteins docking software.

JOURNAL OF CHEMICAL INFORMATION AND MODELING (2021)

Review Multidisciplinary Sciences

Array programming with NumPy

Charles R. Harris et al.

NATURE (2020)

Article Biochemical Research Methods

On the Effect of Sphere-Overlap on Super Coarse-Grained Models of Protein Assemblies

Matteo T. Degiacomi

JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY (2019)

Article Chemistry, Physical

Protein Docking Using a Single Representation for Protein Surface, Electrostatics, and Local Dynamics

Lucas S. P. Rudden et al.

JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2019)

Article Biochemistry & Molecular Biology

It takes a dimer to tango: Oligomeric small heat shock proteins dissociate to capture substrate

Indu Santhanagopalan et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2018)

Article Biochemistry & Molecular Biology

Accommodating Protein Dynamics in the Modeling of Chemical Crosslinks

Matteo T. Degiacomi et al.

STRUCTURE (2017)

Article Multidisciplinary Sciences

Integrating mass spectrometry with MD simulations reveals the role of lipids in Na+/H+ antiporters

Michael Landreh et al.

NATURE COMMUNICATIONS (2017)

Article Chemistry, Multidisciplinary

ATSAS 2.8: a comprehensive data analysis suite for small-angle scattering from macromolecular solutions

D. Franke et al.

JOURNAL OF APPLIED CRYSTALLOGRAPHY (2017)

Article Biochemistry & Molecular Biology

Characterisation of ShigellaSpa33 and ThermotogaFliM/N reveals a new model for C-ring assembly in T3SS

Melanie A. McDowell et al.

MOLECULAR MICROBIOLOGY (2016)

Article Biochemistry & Molecular Biology

Collision Cross Sections for Structural Proteomics

Erik G. Marklund et al.

STRUCTURE (2015)

Article Computer Science, Interdisciplinary Applications

The NumPy Array: A Structure for Efficient Numerical Computation

Stefan van der Walt et al.

COMPUTING IN SCIENCE & ENGINEERING (2011)

Article Chemistry, Multidisciplinary

Software News and Updates MDAnalysis: A Toolkit for the Analysis of Molecular Dynamics Simulations

Naveen Michaud-Agrawal et al.

JOURNAL OF COMPUTATIONAL CHEMISTRY (2011)

Article Biochemistry & Molecular Biology

The Polydispersity of αB-Crystallin Is Rationalized by an Interconverting Polyhedral Architecture

Andrew J. Baldwin et al.

STRUCTURE (2011)