personal photo of Shakilur Rahman

Shakilur Rahman

Tagline:Postdoctoral Researcher at Institut Pasteur, Paris || Structural Biologist || Biochemist || Doctorate from Indian Institute of Technology Kharagpur, India

Paris, France

About Me

As a Postdoctoral researcher at Institut Pasteur, I am deeply engrossed in unravelling the intricacies of viral protein structures within the context of host-pathogen interactions. My journey towards this role began at the esteemed Indian Institute of Technology Kharagpur, where I pursued my Ph.D in Structural Biochemistry from July 2017 to August 2023. Besides, I successfully defended my thesis in December 2023 and was awarded a Ph.D.

During my doctoral years, I delved into the fascinating realm of staphylococcal superantigens and superantigen-like proteins. My research extended to employing cutting-edge techniques in structure-based drug design to target bacterial genes, aiming for innovative solutions against microbial threats.

My expertise spans a wide array of techniques, including molecular biology for gene manipulation, protein purification techniques, and biophysical methods to characterize molecular structures. I am adept at structure modelling, employing molecular docking to understand molecular interactions, performing molecular dynamics simulations for dynamic insights, and harnessing bioinformatics tools for data analysis and interpretation.

This diverse skill set has not only equipped me to navigate complex scientific challenges but has also fueled my passion for advancing our understanding of infectious diseases. At Institut Pasteur, I am dedicated to leveraging these skills to contribute significantly to the field of molecular virology, with a keen focus on elucidating viral protein structures and their implications in host-pathogen dynamics.

Outside of my research endeavours, I am committed to fostering collaborations, sharing knowledge through publications and presentations, and contributing actively to the scientific community's growth and development.

Education

  • Doctorate

    from: 2017, until: 2023

    Field of study:Structural BiochemistrySchool:Indian Institute of Technology, Kharagpur

  • Masters

    from: 2012, until: 2014

    Field of study:BiochemistrySchool:Vidyasagar University

  • Bachelor's

    from: 2009, until: 2012

    Field of study:BiochemistrySchool:The University of Burdwan

  • Higher Secondary

    from: 2007, until: 2009

    School:Gurap R.K. Institution

  • Secondary (Madhyamik)

    from: 2005, until: 2007

    School:Gurap R.K. Institution

Research Interests

  • Structural biology
  • Protein dynamics
  • Host-pathogen interaction

Publications

  • Subtractive proteomics unravel the potency of D-alanine-D-alanine ligase as the drug target for Burkholderia pseudomallei

    Journal ArticlePublisher:International Journal of Biological MacromoleculesDate:2025
    Authors:
    Shakilur RahmanAyush BhattacharyaPrerona JanaManisha GangulyAmit Kumar DasDitipriya HazraAmlan Roychowdhury
  • Molecular dynamics simulation shows enhanced stability in scaffold-based macromolecule, designed by protein engineering: a novel methodology adapted for converting Mtb Ag85A to a multi-epitope vaccine

    Journal ArticlePublisher:Journal of Molecular ModelingDate:2025
    Authors:
  • Designing a novel Scaffold-Based Multi-Epitope Vaccine to Combat Melioidosis Caused by Burkholderia pseudomallei: An In-silico and Immunoinformatics approach

    ManuscriptPublisher:bioRxivDate:2024
    Authors:
  • Putative staphylococcal enterotoxin possesses two common structural motifs for MHC-II binding

    Journal ArticlePublisher:International Journal of Biological MacromoleculesDate:2023
    Authors:
  • Targeting Staphylococcal Cell−Wall Biosynthesis Protein FemX Through Steered Molecular Dynamics and Drug-Repurposing Approach

    Journal ArticlePublisher:ACS OmegaDate:2023
    Authors:
  • Exploring staphylococcal superantigens to design a potential multi-epitope vaccine against Staphylococcus aureus: an in-silico reverse vaccinology approach

    Journal ArticlePublisher:Journal of Biomolecular Structure and DynamicsDate:2023
    Authors:
  • Staphylococcal superantigen-like protein 10 enhances the amyloidogenic biofilm formation in Staphylococcus aureus

    Journal ArticlePublisher:BMC MicrobiologyDate:2023
    Authors:
  • Identification of potential inhibitors against FemX of Staphylococcus aureus: A hierarchial in-silico drug repurposing approach

    Journal ArticlePublisher:Journal of Molecular Graphics and ModellingDate:2022
    Authors:
  • A subtractive proteomics and immunoinformatics approach towards designing a potential multi-epitope vaccine against pathogenic Listeria monocytogenes

    Journal ArticlePublisher:Microbial PathogenesisDate:2022
    Authors:
  • Integrated Multi-omics, Virtual Screening and Molecular Docking Analysis of Methicillin-Resistant Staphylococcus aureus USA300 for the Identification of Potential Therapeutic Targets: An In-Silico Approach

    Journal ArticlePublisher:International Journal of Peptide Research and TherapeuticsDate:2021
    Authors:
  • Label-Free Method Development for Hydroxyproline PTM Mapping in Human Plasma Proteome

    Journal ArticlePublisher:The Protein JournalDate:2021
    Authors:
  • In Silico Prediction of Three Dimentional Structure of Q699Z2, B5TGP9, D3JXJ8, F6K704 Carboxypeptidases from Some Lepidopterian Pests and analysis of Biopesticidal Activity of Kunitz-type Chymotrypsin Inhibitor Protein WCI-5 by Molecular Docking approach

    Journal ArticlePublisher:International Journal of Advanced Biotechnology and ResearchDate:2015
    Authors:
  • Ancient DNA and Neanderthals Mystry

    Journal ArticlePublisher:International Journal of Scientific & Engineering ResearchDate:2014
    Authors:

Work Experiences

  • Postdoctoral Researcher

    from: 2024, until: present

    Organization:Institut PasteurLocation:Paris, Île-de-France, France

  • Research Assistant

    from: 2023, until: 2023

    Organization:Indian Institute of Technology, RoorkeeLocation:Roorkee, Uttarakhand, India

  • Senior Research Fellow

    from: 2019, until: 2023

    Organization:Indian Institute of Technology, KharagpurLocation:Kharagpur, West Bengal

  • Junior Research Fellow

    from: 2017, until: 2019

    Organization:Indian Institute of Technology, KharagpurLocation:Kharagpur Area, India

  • Project Fellow

    from: 2015, until: 2016

    Organization:Indian Institute of Chemical BiologyLocation:4, Raja S.C. Mullick Road, Jadavpur, Kolkata- 700032

Honors & Awards

  • EMBO Travel Grant

    date: 2022-08-01

    Description:

    Awarded with EMBO Travel Grant for attending EMBO Workshop ‘New Approaches to Combat Antibiotic-Resistant Bacteria’, held at Ascona, Switzerland during 12-16 June 2022.

  • EMBO Travel Grant

    date: 2022-08-01

    Description:

    Awarded with EMBO Travel Grant for attending EMBO Workshop ‘New Approaches to Combat Antibiotic-Resistant Bacteria’, held at Ascona, Switzerland during 12-16 June 2022.

Skills

  • LaTeX
  • Biophysics
  • Recombinant protein expression using bacterial cells
  • Protein Purification
  • Virus Culture
  • Neutralization assay
  • Blender
  • Recombinant protein expression using insect cells
  • Biolayer interferometry
  • Enzyme Kinetics
  • X-ray crystallography
  • Mammalian Cell Culture
  • Computational Biology
  • Computational Chemistry
  • Bioinformatics
  • Biochemistry
  • Molecular Biology
  • Cell Culture
  • PCR
  • Western Blotting
  • Cryogenic Electron Microscopy

Certifications

  • 3D Illustration for Science Communication Using Blender - Nov 2024

    Issue date: Jan 2025,

    Issued by: scidart.com .

  • 47th FEBS Congress at Tours, France

    Issue date: Aug 2023,

  • BESCON 2022 Conference at Kolkata, India

    Issue date: Dec 2022,

  • EMBO Workshop on ‘New Approaches to Combat Antibiotic-Resistant Bacteria‘ at Ascona, Switzerland

    Issue date: Jul 2022,

  • Reviewer Certificate

    Issue date: Jul 2025,