Postdoctoral Research Fellow
Firdaus’ research focuses on the cell envelope of Gram-negative bacteria, specifically building a virtual model to understand the structure-function relationship of its molecular components and how they contribute towards protecting the bacteria from antibiotics. His recent work includes studying the molecular interactions between outer membrane protein A (OmpA) and Braun’s lipoprotein (BLP) with peptidoglycan cell wall in atomistic details. OmpA and BLP are two of the most abundant outer membrane proteins in E. coli, and understanding their contribution towards maintaining the integrity of the cell wall is imperative for development of novel antibiotics. Firdaus also built coarse-grain models of the inner membrane and outer membrane held together by the drug efflux pump complex, AcrAB-TolC. This pioneering work will enhance our understanding on protein-induced membrane curvature, lipid enrichment and diffusion, all of which are crucial physical properties of bacterial cell envelope.
This research mainly utilises atomistic and coarse-grain molecular dynamics (MD) simulations along with more advanced computational techniques such as molecular docking, steered MD, and umbrella sampling.
Firdaus completed his DPhil at the University of Oxford in 2015 under the supervision of Prof Mark Sansom and Dr Philip Fowler. The title of his thesis is “Improving Oral Drug Delivery: Computational Studies of Proton-Dependent Oligopeptide Transporters”.
Chorev DS, Baker LA, Wu D, Beilsten-Edmands V, Rouse SL, Zeev-Ben-Mordehai T, Jiko C, Samsudin F, Gerle C, Khalid S, Stewart AG, Matthews SJ, Grunewald K, Robinson CV. (2018) Protein assemblies ejected directly from native membranes yield complexes for mass spectrometry. Science, Accepted.
- Boags A*, Samsudin F*, Khalid S. (2018) Binding From both sides: TolR and full-length OmpA bind and maintain the local structure of the E. coli cell wall. bioRxiv.
- Housden N, Rassam P, Lee S, Samsudin F, Kaminska R, Sharp C, Goult JD, Francis M-L, Khalid S, Bayley H, Kleanthous C. (2018) Directional porin binding of intrinsically disordered protein sequences promotes colicin epitope display in the bacterial periplasm. Biochemistry 57, 4374-4381.
Punekar AS, Samsudin F, Lloyd AJ, Dowson CG, Scott DJ, Khalid S, Roper DI. (2018). The role of the jaw subdomain of peptidoglycan glycosyltransferases for lipid II polymerization. The Cell Surface 2, 54-66.
Hsu P-C*, Samsudin F*, Shearer J, Khalid S. (2017). It Is Complicated: Curvature, Diffusion, and Lipid Sorting within the Two Membranes of Escherichia coli, J. Phys. Chem. Lett. 8, 5513-5518
Samsudin F, Boags A, Piggot TJ, Khalid S. (2017). Braun’s Lipoprotein Facilitates OmpA Interaction with the E. coli Cell Wall. Biophys. J. 113, 1496-1504.
Boags A∗ , Hsu P-C∗ , Samsudin F∗ , Bond PJ, Khalid S. (2017). Progress in Molecular Dynamics Simulations of Gram-negative Bacterial Cell Envelopes, J. Phys. Chem. Lett. 8, 2513-251.
Samsudin F, Ortiz-Suarez ML, Piggot TJ, Bond PJ, Khalid S. (2016). OmpA: a Flexible Clamp for Bacterial Cell Wall Attachment, Structure 24, 2227-2235
Ortiz-Suarez ML*, Samsudin F*, Piggot TJ, Bond PJ and Khalid S. (2016). Full-Length OmpA: Structure, Function, and Membrane Interactions Predicted by Molecular Dynamics Simulations. Biophys. J. 111, 1692-1702.
Samsudin F, Parker JL, Sansom MSP, Newstead S and Fowler PW. (2016). Accurate Prediction of Ligand Affinities for a Proton-Dependent Oligopeptide Transporter. Cell Chem. Biol. 23, 299-309.
Beale JH*, Parker JL*, Samsudin F*, Barret AL, Senan A, Bird LE, Scott D, Owens RJ, Sansom MSP, Tucker SJ, Meredith D, Fowler PW, Newstead S. (2015) Crystal Structures of the Extracellular Domain from PepT1 and PepT2 Provide Novel Insights into Mammalian Peptide Transport. Structure 23, 1889-1899.
*Joint first authors
School of Chemistry
University of Southampton
SO17 1 BJ