Computational Protein Modeling and Analysis

This course will focus on the use of efficient technologies used in the protein modeling and its analysis on the basis of the available amino acid or gene sequences.During this course, candidates learned the introduction to the basic biology required for computational structural designing along with Modeling software. The course includes hands-on exercises on sequence searching (genes & Proteins) and the protein structure design and its analysis approach.

Week

Topics

Video Title

Week-1

Cell Biology

Basic Biology-I

Microbiology

Basic Biology-II

Virology

Basic Biology-III

Week-2

Molecular Biology

Basic Biology-IV

Chromosomes and Genes

Basic Biology-V

Amino acids and Protein Synthesis

Basic Biology-VI

Week-3

History and development of computers, Computer Coding, Number system

Basics of Computer-I

Languages and flow charts and Operating Systems

Basics of Computer-II

Modern Computers, Supercomputers, Internet and related programs, Introduction to Biostatistics

Basics of Computer-III

Week-4

Basics about Protein

Introduction to Protein

Detail about primary structure of Protein

Primary structures of Protein

Secondary Structure with method of identification

Secondary Structure with method of identification

Detail about Tertiary Structure

Tertiary Structure

Detail about Quaternary Structure

Quaternary Structure

Week-5

Introduction to Bioinformatics, Origin and History of Bioinformatics,

Introduction to Bioinformatics

Introduction to alignment and Types of Alignments Global and. Local alignment

Sequence Alignment

Pair wise Alignment, Multiple Sequence Alignment

Types of alignment-I

Clustal W Tool

Types of alignment-II

Week-6

Basic Local Alignment Search Tool with demo

BLAST-I

Alignment Search Tool with demo

BLAST-II

Structural determination and Types of Molecular Modeling

Structure Determination and Molecular Modeling

Week-7

Different Types of Search Tools

Database Search

Details About NCBI

Database Search NCBI-I

NCBI searching

Database Search NCBI-II

Week-8

Introduction and detail about RCSB

Database Search RCSB-I

Searching in RCSB

Database Search RCSB-II

Week-9

Details about Modeler and protein modeling through Modeler

Modeling Software-I

Details about different Modeler and protein modeling through other Modeler

Modeling Software-II

Week-10

Introduction and features of SWISS-Model

Modeling Server SWISS-Model

Introduction and features of The Pipeline

Modeling Server The Pipeline

Introduction and features of The Workspace

Modeling Server The Workspace

Week-11

Introduction and features of Modeling Server The Repository

Modeling Server The Repository

Introduction and features of Modeling Server 3D-JIGSAW

Modeling Server 3D-JIGSAW

Introduction and features of Modeling Server Geno3D

Modeling Server Geno3D

Week-12

Details about Rasmol with Demo

Protein Structure Visualization Tool-I

Details about Swiss-PDB Viewer with Demo

Protein Structure Visualization Tool-II

About Procheck tool

Structure Validation-1

About WHAT IF server

Structure Validation-2

About PROSA

Structure Validation-3

Computer, Biology and Modeller

Conclusion and Revision