Bioinformatics Software and Tools 1. Gene Predictor(ChemGenome 2.0) Whole Genome Analysis 2. Bhageerath Predicts native-like structures for small globular proteins 3. Sanjeevini A complete drug design software. 4. Binding Affinity Prediction of Protein-Ligand Server(BAPPL) Computes the binding free energy of a protein-ligand complex. 5. Binding Affinity Prediction of Protein-Ligand complex containing Zinc Server (BAPPL-Z) Computes the binding free energy of a metalloprotein-ligand complex containing zinc. 6. Drug-DNA Interaction Energy (PreDDICTA) Calculates the Drug-DNA interaction energy. 7. ParDOCK - Automated Server for Rigid Docking Predicts the binding mode of the ligand in receptor target site. 8. Active Site Prediction 9. Automated Version Of Active Site Prediction (AADS) Predicts 10 binding sites in a protein target and docks the uploaded ligand molecule at all 10 sites predicted in an automated mode. 10. DnaDOCK - Dna Ligand Docking All-atom energy based Monte Carlo DNA ligand docking 11. Non Redundant Database of Small Molecules Virtual high throughput screening of small molecules and their optimization into lead like candidates. 12. Lipinski Filters Checks whether a drug satisfies the 5 Lipinski rules. 13. DNA Sequence to Structure Generates double helical secondary structure of DNA using conformational parameters taken from experimental fiber-diffraction studies. 14. Hydrogen Addition to Nucleic Acid Adds the hydrogen coordinates to the X-ray crystal structures of Nucleic acids 15. Hydrogen Addition to Protein Adds the hydrogen coordinates to the X-ray crystal structures of Proteins. 16. Gene Evaluator(ChemGenome 1.1) Characterizes a DNA sequence as gene or nongene 17. Protein Structure Generation Structure Generation from given dihedrals 18. Persistence Length Filters for Globular Protein Evaluation 19. Radius of Gyration Filters for Globular Protein Evaluation 20. Hydrophobicity Filters for Globular Protein Evaluation 21. Packing Fraction Filters for Globular Protein Evaluation 22. ProRegIn Protein Regularity Index 23. Protein structure optimizer Energy minimizer for proteins 24. ProSEE Scoring Function for Protein Structure Evaluation Calculates intramolecular energy of a protein in component-wise break up. 25. Superimpose Fits two molecules and calculates the RMSD between them. 26. Protein Angle Descriptor Calculates the angles & dihedral in the main chain of the protein 27. Wiener Index Calculator This tool is useful for calculating Wiener index. 28. RASPD for Preliminary Screening of Drugs This tool is useful for preliminary screening of drug molecules based on Wiener index calculation. This will predict binding energy of drug/target at a preliminary stage. 29. BGPred(Beta Gamma Turn Predictor) BG Pred web server predicts beta and gamma turns. 30. Volume Calculator Calculates the volume of a molecule 31. Melting Temperature Predictor (For oligonuclotide) It predicts the melting temperature of short DNA sequences (upto 70 base pairs) at a user defined salt within the specified range. 32. Genome analysis by melting It predicts the melting temperature for longer(>70 bases) DNA sequences, and it also gives the melting profile for the sequence. 33. Transferrable Partial Atomic Charge Model - up to 4 bonds (TPACM4) This tool is used for assignment of partial atomic charge of small molecules. 34. PROSECSC PROTEIN SECONDARY STRUCTURE PREDICTION. 35. Gene Predictor(ChemGenome 3.0) ChemGenome 3.0 is a gene prediction tool that takes a whole genome sequence or a part of the genome of a prokaryote or virus as input and predicts genes along with their coressponding protein sequences in all the six reading frames. 36.Bhageerath H A Homology ab-intio Hybrid Web server for Protein Tertiary Structure Prediction. Starting with sequence, the web server predicts 5 native-like candidate structures for the protein. 37. pcSM Software pcSM: Capturing Native Protein Structures with a Physico-Chemical Metric.