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Description
Aurora utilizes principles of quantum mechanics and thermodynamics alongside a sophisticated continuous water model to assess the solvation effects on ligand binding affinities. This methodology is significantly different from the traditional scoring functions typically employed for predicting binding affinities. By integrating entropy and aqueous electrostatic contributions directly into the computations, Aurora's algorithms yield far more precise and reliable binding free energy values. The interaction between a ligand and a protein is fundamentally defined by the binding free energy value. This free energy (F) serves as a thermodynamic measure that correlates directly with the experimentally determined inhibition constant (IC50), influenced by factors such as electrostatic interactions, quantum effects, aqueous solvation forces, and the statistical characteristics of the molecules involved. Non-additivity in F arises primarily from two key components: the electrostatic and solvation energy, and the entropy, which together contribute to the complexity of ligand-protein interactions. Understanding these contributions is essential for the accurate prediction of binding affinities in drug design and molecular biology.
Description
YASARA is a versatile molecular graphics, modeling, and simulation software that was introduced in 1993 and is compatible with Windows, Linux, MacOS, and Android platforms, designed to simplify the process of obtaining answers to your scientific inquiries. Featuring a user-friendly interface and stunning photorealistic visuals, it also accommodates budget-friendly virtual reality headsets, shutter glasses, and autostereoscopic displays, fostering an immersive experience that allows users to concentrate on their objectives while minimizing distractions from the software itself. At the core of YASARA is PVL (Portable Vector Language), an innovative development framework that delivers performance capabilities that far exceed those of conventional applications. This advanced framework empowers users to visualize even the most complex protein structures and facilitates genuine interactive real-time simulations with precise force fields on standard computing systems, while also leveraging GPU capabilities when available. By enabling users to manipulate molecules actively and engage with dynamic models instead of just viewing static images, YASARA represents a significant advancement in molecular modeling technology. This dynamic interaction not only enhances the learning experience but also encourages deeper exploration of molecular behavior.
API Access
Has API
No
API Access
Has API
No
Integrations
Python
No
Pricing Details
No price information available.
Free Trial
No
Free Version
No
Pricing Details
Free
Free Trial
No
Free Version
Yes
Deployment
Web-Based
Yes
On-Premises
No
iPhone App
No
iPad App
No
Android App
No
Windows
No
Mac
No
Linux
No
Chromebook
No
Deployment
Web-Based
No
On-Premises
No
iPhone App
No
iPad App
No
Android App
Yes
Windows
Yes
Mac
Yes
Linux
Yes
Chromebook
No
Customer Support
Business Hours
Yes
Live Rep (24/7)
No
Online Support
Yes
Customer Support
Business Hours
No
Live Rep (24/7)
No
Online Support
Yes
Types of Training
Training Docs
No
Webinars
No
Live Training (Online)
No
In Person
No
Types of Training
Training Docs
Yes
Webinars
No
Live Training (Online)
No
In Person
No
Vendor Details
Company Name
Aurora Fine Chemicals
Founded
1990
Country
United States
Website
aurorafinechemicals.com/drug-discovery-software.html
Vendor Details
Company Name
YASARA
Founded
1993
Country
Austria
Website
www.yasara.org
