Protein 3D Structure Prediction Using AlphaFold

Course Overview

Protein structure prediction is a crucial component of modern bioinformatics and drug discovery. This mini workshop introduces participants to AlphaFold , one of the most advanced AI-driven tools for predicting protein 3D structures with remarkable accuracy. Led by Fachrur Rizal Mahendra, S.Si., M.Si. from the Bioinformatics Research Center (BRC) – INBIO , this session will guide you from basic concepts to practical application, including running AlphaFold predictions, visualizing structures, and analyzing protein interactions through a real study case of CAS9 protein and sgRNA assembly . Protein structure prediction is a crucial component of modern bioinformatics and drug discovery. This mini workshop introduces participants to AlphaFold , one of the most advanced AI-driven tools for predicting protein 3D structures with remarkable accuracy. Led by Fachrur Rizal Mahendra, S.Si., M.Si. from the Bioinformatics Research Center (BRC) – INBIO , this session will guide you from basic concepts to practical application, including running AlphaFold predictions, visualizing structures, and analyzing protein interactions through a real study case of CAS9 protein and sgRNA assembly .

Sub-topics

• 1.
  Theoritical Session: Introduction to Protein Structure Prediction, AlphaFold Overview, AlphaFold Databases & Resources, AlphaFold Workflow, Applications in Research

• 2.
  Exploring Advanced Tools : Integrating MMseqs2 in AlphaFold-Multimer for improved multiple sequence alignment (MSA) for protein prediction, EvoBind to study binding peptide binding using evolutionary information

• 3.
  Hands on session: Running AlphaFold with ColabFold, Understanding the Output, Visualizing Protein Structures, Interpreting Results

• 4.
  Study Case : CAS9 protein and sgRNA assembly, multimer interaction, and design cyclic peptide binding site

Course Components

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