3 Day International Virtual Workshop Molecular Dynamics Simulations: From Theory to Practice | 24-26 Jan 2026

3 Day International Virtual Workshop   

Molecular Dynamics Simulations: From Theory to Practice

24-26 Jan 2026

Quaxon Bio & IT Solutions, is going to conduct it’s 69th  international virtual workshop on “Molecular Dynamics Simulation: From Theory to Practice ” scheduled to held from 24 to 26 January 2026 globally at Indian Standard Time 7.00 PM

Last Date to Register 22. 01.2026 or as per the seat availability.

Objective

The workshop will introduce the field of Molecular Dynamics Simulation to the participants through lecture, demonstration and one to one hands-on session. The objective of the workshop is to familiarize the participants with theoretical as well as practical concept of molecular dynamics simulation so that they can apply this technique in their study and research.

The expected outcome is that the participants should be able to conduct MD simulations using Gromacs for Protein-Ligand complex and  able to analyze the output.

Continue reading or visit website post

https://qbiits.org/molecular-dynamics-simulation-gromacs-for-bioscience/ 

World Wide Time Schedule

India, Srilanka:7.00 PM        

Nepal:7.15  PM

Central European Time: 2.30 PM

 Washington DC:8.00 AM,  Canada: 9:30 AM        Moscow: 4.00 PM,    

South  Africa: 3:30 PM,  Dubai: 5.00 PM, Moroco: 2.30  PM ,        

Bangkok: 8.30 PM, London: 1:30 PM      Kuwait: 5.00 PM

Kindly Visit https://savvytime.com/ to know the starting time in your country’s time zone

Platform : Virtual mode(Google Meet)

Eligibility:

All Bioscience/Botany/pharmacy/biotech/biochemistry/biophysics/Bioinformatics students, faculties and research scholar are eligible for this event.(No prior coding experience is required, must have basic computer skill on windows)

System Requirement

Must have Windows 10 or above with minimum 4 GB(WSL option) RAM/Ubuntu/other Linux variants. No coding knowledge required

About the Theme

Molecular Dynamics (MD) simulation is a computational technique used in molecular modelling to study the dynamic behaviour of atoms and molecules over time. It provides valuable insights into the behaviour and properties of complex systems at the atomic level. Molecular simulations usually deployed to calculate or predict properties and quantities that may be difficult to observe experimentally.  This thechnology is widely used in various scientific fields, such as chemistry, bioscience, materials science, and physics, to investigate molecular structures, conformational changes, thermodynamics, and kinetics of chemical reactions and other properties.

GROMACS is one of the most important and widely used molecular dynamics simulation software packages in computational bioscience because of its high performance, accuracy, and user-friendly workflow. It enables researchers to study the dynamic behavior, stability, and interactions of biomolecules such as proteins, nucleic acids, and protein–ligand complexes at the atomic level. GROMACS plays a crucial role in drug discovery, protein structure–function analysis, enzyme mechanism studies, and vaccine design by allowing realistic simulation of biological systems under physiological conditions. Its efficient algorithms, support for multiple force fields, and powerful analysis tools make it especially valuable for bioscience students, research scholars, and faculty for both learning and advanced research applications.

Read more about the application of Molecular Dynamics Simulation

Application of MD Simulation in Bioscience

Application of MD Simulation in nano science and Biophysics

This method has a central importance in bioscience and pharmaceutical science and it became an indispensable tools in  bioscience research.  Some applications are

·         Design and discovery of new drug molecules.

·         Understanding the dynamics of  protein folding process.

·         Characterizing biomolecular interactions:

·         Understanding molecular cause of disease and drug resistance in microbes

Tools to be used: GROMACS, VMD and other open source tools

No mandatory requirement of Linux OS, but must have windows 10 or above

Detail Syllabus and schedule

*The schedule of the programme may change in case of any unseen problem.

24/01/2026

Theory Session

Introduction to Molecular Dynamics (MD) Simulation, Applications of MD in: Protein dynamics, Protein–ligand interactions, Newton’s equations of motion and integration algorithm, Force fields (AMBER, CHARMM, OPLS)
System preparation: Solvent models (SPC, TIP3P) and solvation of the system, structure cleaning and pre-processing, addition of ions.. Periodic boundary conditions, Energy minimization, equilibration and production dynamics.

Hands-on-session

Installation overview and environment setup for GROMACS, Selection of a protein–ligand complex (from PDB), Cleaning and preprocessing protein structure, Ligand preparation overview, Generating topology files, Defining simulation box Solvation and ion addition

25/01/2026

Hands-on Session
Energy minimization, Equilibration simulation using NVT and NPT ensemble
Preparation of protein–ligand system for production MD Production MD simulation setup and run Monitoring simulation parameters:, Temperature, Pressure, Energy stability, Understanding trajectory files (.xtc, .trr), Visualization of MD trajectory

26/01/2026

Hands-on-Session

Introduction to MD trajectory analysis, Structural stability analysis:RMSD (Root Mean Square Deviation), RMSF (Root Mean Square Fluctuation), Compactness analysis: Radius of Gyration (Rg): Interaction analysis:, Hydrogen bond analysis and Protein–ligand interaction stability, Energy analysis during simulation: Visualization of conformational changes using vmd/pymol, Interpretation of results in a biological context
Common errors and troubleshooting in GROMACS
Best practices and case studies

Key Takeaway

·         Complete practical based training and hands-on-session of 6 plus hours

·         Designed for beginner to advance level learners

·         No prior coding experience required

·         Applicable for Both Linux and Windows user

·         E-Certificate for all participants

·         Session recording and video tutorial for further practice

Payment and Registration

Step-1: Pay the fee using the below link as per your category

Step-2: Fill-up the registration form after payment, attach the screenshot of payment

PAYMENT             

For Indian participants

For faculty/pdf/RA and  other working professionals Rs.1100/-

For students and PhD Scholar Rs.1000/-

Payment link for Indians

https://pages.razorpay.com/pl_NMC6iJUcHHr686/view

or for  Alternative payment kindly contact +91-9692521875 

For international participants(other than India)

For students/PhD Scholar  $20/-

For faculty/pdf and other working professionals $25/-

Payment link 

https://www.paypal.com/paypalme/Workshop334

Registration

Must Register After the Payment Using Below Link

https://docs.google.com/forms/d/1LCTA_5LdA3sCTDjPUD9Ann_tc8CH44hP1o73G2Yz5t8/edit

About Us : Quaxon Bio & IT Solutions is a fastest growing EduTech start-up registered to Ministry of Micro, Small and Medium Enterprises, Govt. of India. We are acting as industry-academic interface by knowledge transformation and produce human resource equipped with next generation technology. We are conducting webinar, conference and workshop on with international participants across the globe for knowledge transformation. Our main objective is to provide cutting edge technical education at affordable price to everyone. This is going to be our 69th International virtual Workshop

Click to connect or call us +91-9692521875                                                    

 Write to us quaxonbiits@gmail.com    

For details term and condition kindly visit webpost

https://qbiits.org/molecular-dynamics-simulation-gromacs-for-bioscience/ 

Quaxon Bio & IT Solutions, India www.qbiits.org            

Email: quaxonbiits@gmail.com

WhatsApp: +919692521875                                                    

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