Home
Team member
Computational Resources
Current Activites
Position Open
Publications
Funding and collaborations
Gallery
Contact Us
Computational Structural Biology Group
Home
(current)
Team member
Computational Resources
Current Activites
Position Open
Publications
Funding and collaborations
Gallery
Contact Us
Computational Biology Tools
1) Modeler
3D structure building of protein, single template, and multi-template approach.
2) AutoDock
Molecular docking of protein-ligand using blind, local, induced-fit docking with Windows and Linux environment.
3) Gromacs
MD simulation of protein, protein-ligand, RNA, modified RNA, DNA-duplex, tRNA, and lipid bilayer system with protein.
4) AMBER
MD simulation using AMBER software with force field parameter generation for the ligand or heteroatoms.
5) VMD
Visual molecular dynamics for image processing and publication-quality MD simulation movie generation.
6) ORCA
Computational chemistry, geometry optimization, and HOMO and LUMO calculations.
7) Quantum Espresso
For computational chemistry.
8) Avogadro
For computational chemistry.
9) Chimera, PyMOL
Visualization and analysis of data.
9) System
Hp Z4 GPU based workstation
Lenovo ThinkSystem SR650 server with L40S GPU card