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Modeling symmetric macromolecular structures in Rosetta3

Modeling symmetric macromolecular structures in Rosetta3

http://www.wikidata.org/entity/Q28478675

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Protein Calligraphy: A New Concept Begins To Take Shape Principles and Overview of Sampling Methods for Modeling Macromolecular Structure and Dynamics Self-assembling protein nanoparticles in the design of vaccines An Integrated Framework Advancing Membrane Protein Modeling and Design A refined model of the prototypical Salmonella SPI-1 T3SS basal body reveals the molecular basis for its assembly Computational design of a symmetric homodimer using -strand assembly Cryo-EM model validation using independent map reconstructions Structure of the basal components of a bacterial transporter Computational Design of Self-Assembling Protein Nanomaterials with Atomic Level Accuracy High-Resolution Microtubule Structures Reveal the Structural Transitions in αβ-Tubulin upon GTP Hydrolysis Accurate design of co-assembling multi-component protein nanomaterials De novo design of protein homo-oligomers with modular hydrogen-bond network-mediated specificity Accurate design of megadalton-scale two-component icosahedral protein complexes The common structural architecture of Shigella flexneri and Salmonella typhimurium type three secretion needles The molecular basis for flexibility in the flexible filamentous plant viruses One contact for every twelve residues allows robust and accurate topology-level protein structure modeling Using the RosettaSurface algorithm to predict protein structure at mineral surfaces.Crystal structures of designed armadillo repeat proteins: implications of construct design and crystallization conditions on overall structure.The Structure of a Type 3 Secretion System (T3SS) Ruler Protein Suggests a Molecular Mechanism for Needle Length Sensing Crucial steps in the structure determination of a coronavirus spike glycoprotein using cryo-electron microscopy.GalaxyHomomer: a web server for protein homo-oligomer structure prediction from a monomer sequence or structure Applications of contact predictions to structural biology Predicting Homogeneous Pilus Structure from Monomeric Data and Sparse Constraints.Functional and dynamic polymerization of the ALS-linked protein TDP-43 antagonizes its pathologic aggregation.Improved low-resolution crystallographic refinement with Phenix and Rosetta High-resolution structure of the Shigella type-III secretion needle by solid-state NMR and cryo-electron microscopy.Computational design of a leucine-rich repeat protein with a predefined geometry The NMR-Rosetta capsid model of M13 bacteriophage reveals a quadrupled hydrophobic packing epitope.Computation and Functional Studies Provide a Model for the Structure of the Zinc Transporter hZIP4.Structure of a designed tetrahedral protein assembly variant engineered to have improved soluble expression 3DIANA: 3D Domain Interaction Analysis: A Toolbox for Quaternary Structure Modeling.Low Energy Atomic Models Suggesting a Pilus Structure that could Account for Electrical Conductivity of Geobacter sulfurreducens Pili.Design of a hyperstable 60-subunit protein dodecahedron. [corrected]Characterization and modeling of the oligomeric state and ligand binding behavior of purified translocator protein 18 kDa from Rhodobacter sphaeroides.Protocols for Molecular Modeling with Rosetta3 and RosettaScripts Structural basis for KCNE3 modulation of potassium recycling in epithelia Epitomics: IgG-epitome decoding of E6, E7 and L1 proteins from oncogenic human papillomavirus type 58.A hybrid NMR/SAXS-based approach for discriminating oligomeric protein interfaces using Rosetta.Synthetic biology for the directed evolution of protein biocatalysts: navigating sequence space intelligently.Rosetta Broker for membrane protein structure prediction: concentrative nucleoside transporter 3 and corticotropin-releasing factor receptor 1 test cases.

P2860

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P2860

Modeling symmetric macromolecular structures in Rosetta3

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2011 թվականին հրատարակված գիտական հոդված

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2011年の論文

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2011年論文

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2011年論文

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2011年論文

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2011年論文

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2011年論文

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2011年论文

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name

Modeling symmetric macromolecular structures in Rosetta3

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Modeling symmetric macromolecular structures in Rosetta3

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Modeling symmetric macromolecular structures in Rosetta3

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type

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Modeling symmetric macromolecular structures in Rosetta3

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Modeling symmetric macromolecular structures in Rosetta3

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Modeling symmetric macromolecular structures in Rosetta3

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Modeling symmetric macromolecular structures in Rosetta3

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Modeling symmetric macromolecular structures in Rosetta3

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Modeling symmetric macromolecular structures in Rosetta3

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JOURNAL.PONE.0020450

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Modeling symmetric macromolecular structures in Rosetta3

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Frank DiMaio

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Phil Bradley

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P2860

Native protein sequences are close to optimal for their structures

Tertiary templates for proteins. Use of packing criteria in the enumeration of allowed sequences for different structural classes

ROSETTA3: an object-oriented software suite for the simulation and design of macromolecules

Improved beta-protein structure prediction by multilevel optimization of nonlocal strand pairings and local backbone conformation.

A large-scale experiment to assess protein structure prediction methods.

Protein design is NP-hard.

Determination of the structures of symmetric protein oligomers from NMR chemical shifts and residual dipolar couplings.

Prediction of the structure of symmetrical protein assemblies.

Simultaneous prediction of protein folding and docking at high resolution.

Protein-protein docking with backbone flexibility.

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e20450

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scholarly article

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10.1371/JOURNAL.PONE.0020450

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6

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6

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Andrew Leaver-Fay

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51469650

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