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Average Ratings 0 Ratings
Description
NAMD is a high-performance parallel molecular dynamics software specifically developed for the simulation of extensive biomolecular systems. Utilizing Charm++ parallel objects, it effectively scales from personal computing devices to advanced parallel systems, accommodating hundreds of cores for standard simulations and exceeding 500,000 cores for the most demanding cases. This software is tailored for researchers aiming to perform efficient simulations of large molecular systems while ensuring integration with commonly utilized molecular modeling workflows. It collaborates with the well-known molecular graphics tool VMD for both simulation setup and trajectory analysis, maintaining compatibility with file formats from AMBER, CHARMM, and X-PLOR. Furthermore, it is engineered to facilitate biomolecular simulations that encompass proteins, membranes, nucleic acids, solvents, ions, and other molecular systems, allowing for an in-depth exploration of atomic interactions and time-dependent movements. Researchers can therefore rely on NAMD to provide comprehensive insights into complex molecular dynamics.
Description
Swiss-PdbViewer, also known as DeepView, is a software tool that offers an intuitive interface for the simultaneous analysis of multiple proteins. Users can superimpose these proteins to determine structural alignments and evaluate various critical components, such as active sites. The application simplifies the process of obtaining information on amino acid mutations, hydrogen bonds, angles, and atomic distances through its easy-to-navigate graphical and menu-driven interface. Developed by Nicolas Guex since 1994, Swiss-PdbViewer was originally closely integrated with SWISS-MODEL, an automated homology modeling server created by the Swiss Institute of Bioinformatics (SIB) within the Structural Bioinformatics Group at the Biozentrum in Basel. Over time, the SWISS-MODEL web interface has progressed significantly, allowing for direct use in advanced modeling tasks. As a result, the complexity of maintaining a direct connection with Swiss-PdbViewer has led to the discontinuation of support for that integration. This evolution reflects broader changes in bioinformatics tools and their capabilities.
API Access
Has API
No
API Access
Has API
No
Integrations
No details available.
Integrations
No details available.
Pricing Details
Free
Free Trial
No
Free Version
Yes
Pricing Details
No price information available.
Free Trial
No
Free Version
No
Deployment
Web-Based
No
On-Premises
No
iPhone App
No
iPad App
No
Android App
No
Windows
Yes
Mac
Yes
Linux
Yes
Chromebook
No
Deployment
Web-Based
No
On-Premises
No
iPhone App
No
iPad App
No
Android App
No
Windows
Yes
Mac
Yes
Linux
Yes
Chromebook
No
Customer Support
Business Hours
No
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
Yes
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
Theoretical and Computational Biophysics Group
Founded
2006
Country
United States
Website
www.ks.uiuc.edu/Research//namd/
Vendor Details
Company Name
Swiss-PdbViewer
Founded
1994
Country
Switzerland
Website
spdbv.unil.ch/