Source 1primary paper2019MED
Toolkit/Rosetta
Rosetta
Also known as: the molecular modeling program Rosetta
Taxonomy: Technique Branch / Method. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
Rosetta is a molecular modeling program used for computational design of new protein structures and protein complexes. The cited evidence specifically attributes its design capability to rotamer-based sequence optimization protocols that support accurate design of protein tertiary and quaternary structure.
Usefulness & Problems
Why this is useful
Rosetta is useful for in silico protein engineering because it provides a framework for designing new protein structures and complexes before experimental construction. The cited review highlights its ability to achieve accurate design at the levels of tertiary and quaternary structure.
Source:
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Source:
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Problem solved
Rosetta addresses the problem of identifying amino acid sequences compatible with desired three-dimensional protein folds and assembly interfaces. The supplied evidence specifically points to design of tertiary structure and quaternary structure using rotamer-based sequence optimization.
Problem links
Rosetta is a concrete molecular modeling platform, so it is more actionable than a broad concept. It could plausibly be used to generate or compare candidate conformations for dynamic proteins, but the provided summary only supports general protein structure design rather than disorder or ensemble prediction.
Taxonomy & Function
Primary hierarchy
Technique Branch
Method: A concrete computational method used to design, rank, or analyze an engineered system.
Techniques
Computational DesignTarget processes
No target processes tagged yet.
Implementation Constraints
cofactor dependency: cofactor requirement unknowndesign scope quaternary structure: Truedesign scope tertiary structure: Trueencoding mode: genetically encodedimplementation constraint: context specific validationoperating role: builder
The evidence identifies Rosetta as a molecular modeling program and specifies rotamer-based sequence optimization as the relevant protocol class. No details are provided here on software modules, input requirements, computational resources, or experimental implementation constraints.
The supplied evidence does not report quantitative performance metrics, benchmark comparisons, or failure modes for the described Rosetta protocols. It also does not specify which classes of proteins or complexes were validated in the cited source.
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Ranked Claims
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Approval Evidence
1 source2 linked approval claimsfirst-pass slug rosetta
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Source:
capabilitysupports
Rosetta is used to design new protein structures.
I will summarize how the molecular modeling program Rosetta is used to design new protein structures
Source:
capabilitysupports
Rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Over the last 25 years, there has been significant progress in the field of computational protein design as rotamer-based sequence optimization protocols have enabled accurate design of protein tertiary and quaternary structure.
Source:
Comparisons
Source-backed strengths
The cited evidence states that rotamer-based sequence optimization protocols in Rosetta have enabled accurate design of protein tertiary and quaternary structure. It is also explicitly described as a program for designing new protein structures and complexes.
Compared with free-energy calculations
Rosetta and free-energy calculations address a similar problem space.
Shared frame: same top-level item type
Compared with mathematical model
Rosetta and mathematical model address a similar problem space.
Shared frame: same top-level item type
Strengths here: looks easier to implement in practice.
Compared with SwiftLib
Rosetta and SwiftLib address a similar problem space.
Shared frame: same top-level item type
Ranked Citations
- 1.