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Tutorials
Tutorials for SAnDReS
-Getting PDB Access Codes from Protein Data Bank
-Cyclin-Dependent Kinases with Ki Information
-Introduction
-Downloading Data from the PDB
-Pre-Docking Analysis
-Docking Hub
-Ensemble-Docking Analysis
-Structural Parameters
-Scoring Functions Analysis
-Machine Learning Box
-Analysis of Decoys
Docking School
-Re-dock of Roscovitine Against Human Cyclin-Dependent Kinase 2 PubMed 2A4L
-Using AutoDock 4 ZIP
-Using AutoDock Vina ZIP
-Using GemDock ZIP
-Using Molegro Virtual Docker ZIP
-Using SwissDock ZIP
-Manuals
-AutoDock 4.2.6
-AutoDock Vina
-GemDock 2.1
-Molegro Data Modeller
-Molegro Virtual Docker 6
-Webservers for Protein-ligand Docking Simulations
-DockBlast
-PatchDock
-SwissDock
Homology Modeling
-Homology Modeling of Human Cyclin-Dependent Kinase 3 with Multiple Templates ZIP
Related Sites:
-Genbank
-Protein Data Bank
-MUSCLE
-MODELLER
Molecular Dynamics
-Molecular Dynamics Simulations of Protein-ligand Complexes Using GROMACS 4.0.5 ZIP PubMed
Python Programming Language for Bioinformatics
-Docking Root Mean Square Deviation (RMSD) in Python ZIP
Crystallographic position and pose for docking simulation.
B-factor plot generated by bfactor_plot.py .
- Dihedral Angle in Python ZIP
Orthogonal system for calculation of torsion angle.
- Ramachandran Plot in Python ZIP
Ramachandran plot for 1KXY
