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Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics.

Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics.

http://www.wikidata.org/entity/Q29616808

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Structural analyses at pseudo atomic resolution of Chikungunya virus and antibodies show mechanisms of neutralization Deep classification of a large cryo-EM dataset defines the conformational landscape of the 26S proteasome Elongation in translation as a dynamic interaction among the ribosome, tRNA, and elongation factors EF-G and EF-Tu Integrative Modeling of Macromolecular Assemblies from Low to Near-Atomic Resolution Mechanism of eIF6 release from the nascent 60S ribosomal subunit.QwikMD - Integrative Molecular Dynamics Toolkit for Novices and Experts.Models for the a subunits of the Thermus thermophilus V/A-ATPase and Saccharomyces cerevisiae V-ATPase enzymes by cryo-EM and evolutionary covariance A new model for pore formation by cholesterol-dependent cytolysins YphC and YsxC GTPases assist the maturation of the central protuberance, GTPase associated region and functional core of the 50S ribosomal subunit Dynamical features of the Plasmodium falciparum ribosome during translation.An intrinsically disordered region of the adenovirus capsid is implicated in neutralization by human alpha defensin 5 Mechanism of CRISPR-RNA guided recognition of DNA targets in Escherichia coli.Cryo-EM structure of isomeric molluscan hemocyanin triggered by viral infection MMB-GUI: a fast morphing method demonstrates a possible ribosomal tRNA translocation trajectory.The p7 protein of hepatitis C virus forms structurally plastic, minimalist ion channels Unraveling low-resolution structural data of large biomolecules by constructing atomic models with experiment-targeted parallel cascade selection simulations.Coagulation factor X activates innate immunity to human species C adenovirus ATTRACT-EM: a new method for the computational assembly of large molecular machines using cryo-EM maps CryoEM visualization of an adenovirus capsid-incorporated HIV antigen Atomic model of rabbit hemorrhagic disease virus by cryo-electron microscopy and crystallography Ribosome-induced changes in elongation factor Tu conformation control GTP hydrolysis Regulation of the Protein-Conducting Channel by a Bound Ribosome Structure of Monomeric Yeast and Mammalian Sec61 Complexes Interacting with the Translating Ribosome Structural insight into nascent polypeptide chain-mediated translational stalling.Visualizing the transfer-messenger RNA as the ribosome resumes translation tmRNA-SmpB: a journey to the centre of the bacterial ribosome.Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-A resolution Molecular dynamics of EF-G during translocation Structural insights into cognate versus near-cognate discrimination during decoding.Cryo-EM structure of the ribosome–SecYE complex in the membrane environment Structure of the no-go mRNA decay complex Dom34-Hbs1 bound to a stalled 80S ribosome Structure and mechanism of the Swi2/Snf2 remodeller Mot1 in complex with its substrate TBP Structural basis for the function of a small GTPase RsgA on the 30S ribosomal subunit maturation revealed by cryoelectron microscopy Structural Basis for Microtubule Binding and Release by Dynein ATPase-dependent role of the atypical kinase Rio2 on the evolving pre-40S ribosomal subunit Cryo-EM structure of a 3D DNA-origami object Promiscuous behaviour of archaeal ribosomal proteins: Implications for eukaryotic ribosome evolution Dissecting the in vivo assembly of the 30S ribosomal subunit reveals the role of RimM and general features of the assembly process Inward-facing conformation of the zinc transporter YiiP revealed by cryoelectron microscopy High-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome

P2860

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P2860

Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics.

http://www.wikidata.org/entity/Q29616808

description

2008 nî lūn-bûn

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2008 թուականի Մայիսին հրատարակուած գիտական յօդուած

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2008 թվականի մայիսին հրատարակված գիտական հոդված

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2008年の論文

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2008年論文

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2008年論文

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2008年論文

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2008年論文

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2008年論文

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2008年论文

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Flexible fitting of atomic str ...... maps using molecular dynamics.

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Flexible fitting of atomic str ...... maps using molecular dynamics.

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Flexible fitting of atomic str ...... maps using molecular dynamics.

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Flexible fitting of atomic str ...... maps using molecular dynamics.

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Flexible fitting of atomic str ...... maps using molecular dynamics.

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Flexible fitting of atomic str ...... maps using molecular dynamics.

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Flexible fitting of atomic str ...... maps using molecular dynamics.

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Kakoli Mitra

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Leonardo G Trabuco

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P2860

Structure of the E. coli protein-conducting channel bound to a translating ribosome

Tools for the automatic identification and classification of RNA base pairs

Ni-Zn-[Fe4-S4] and Ni-Ni-[Fe4-S4] clusters in closed and open subunits of acetyl-CoA synthase/carbon monoxide dehydrogenase

Study of the structural dynamics of the E coli 70S ribosome using real-space refinement

Incorporation of aminoacyl-tRNA into the ribosome as seen by cryo-electron microscopy

VMD: visual molecular dynamics

Structure of the 70S ribosome complexed with mRNA and tRNA

Scalable molecular dynamics with NAMD

Structures of the bacterial ribosome at 3.5 A resolution

Refinement of protein structures by iterative comparative modeling and CryoEM density fitting

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10.1016/J.STR.2008.03.005

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5

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5388274

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molecular dynamics simulation

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