Publications


(* indicates corresponding author)


  • Prakash Kishore Hazam, Gaurav Jerath, Nitin Chaudhary, and Vibin Ramakrishnan*. Peptido-mimetic Approach in the Design of Syndiotactic Antimicrobial Peptides. International Journal of Peptide Research and Therapeutics. 2017 ,doi:10.1007/s10989-017-9615-3

  • Prakash Kishore Hazam, Gaurav Jerath, Anil Kumar, Nitin Chaudhary, and Vibin Ramakrishnan*. Effect of tacticity-derived topological constraints in bactericidal peptides.Biochimica et Biophysica Acta. 2017 ,doi:10.1016/j.bbamem.2017.05.002

  • Gaurav Pandey, Jahnu Saikia, Sajitha Sasidharan, Deep C. Joshi, Subhash Thota, Harshal B. Nemade, Nitin Chaudhary, and Vibin Ramakrishnan*. Modulation of Peptide Based Nano-Assemblies with Electric and Magnetic Fields. Scientific Reports. (2017) doi:10.1038/s41598-017-02609-z

  • Karabi Saikia, Yalavarthi Durga Sravani, Vibin Ramakrishnan, and Nitin Chaudhary. Highly potent antimicrobial peptides from N-terminal membrane-binding region of E. coli MreB. Scientific Reports. (2017) ,doi:10.1038/srep42994

  • Sajitha Sasidharan, Prakash Kishore Hazam and Vibin Ramakrishnan*. Symmetry Directed Self-Organization in Peptide Nano-Assemblies Through Aromatic pi-pi Interactions. The Journal of Physical Chemistry B. (2017) 121, 404−411. DOI: 10.1021/acs.jpcb.6b09474

  • Anil Kumar, Ranjit Ranbhor, Kirti Patel, Vibin Ramakrishnan*, Susheel Durani. Automated Protein and Peptide Design: Landmarks and Operational Principles. Progress in Biophysics and Molecular Biology. (2016) http://dx.doi.org/10.1016/j.pbiomolbio.2016.12.002

  • Suman Jyoti Deka, Ashalata Roy, Vibin Ramakrishnan, Debasis Manna and Vishal Trivedi. Danazol has potential to cause pkc translocation, cell-cycle dysregulation and apoptosis in breast cancer cells. Chem. Biol. Drug Des. (2016) doi:10.1111/cbdd.12921

  • Gaurav Jerath, Prakash Kishore Hazam, Shashi Shekhar, Vibin Ramakrishnan*. Mapping the Geometric Evolution of Protein Folding Motor. Plos ONE. (2016) 11(10): e0163993. doi:10.1371/journal.pone.0163993

  • A. Mehra, Gaurav Jerath, Vibin Ramakrishnan, Vishal Trivedi. Characterization of ICAM-1 biophore to design cytoadherence blocking peptides. Journal of Molecular Graphics & Modelling. (2015) 57, 27–35

  • Gaurav Jerath, Prakash Kishore Hazam and Vibin Ramakrishnan*. bPE toolkit: toolkit for computational protein engineering. Systems and Synthetic Biology. (2014) 8:337–341

  • Rahul Metri, Gaurav Jerath, Govind Kailas, Adityabarna Pal & Vibin Ramakrishnan*. Structure Based Barcoding of Proteins Protein Science (2014) 23, 117-120

  • Gaurav Jerath & Vibin Ramakrishnan*. Web-resources in Post Genomic Era. Health Sciences (2014) 1(3), JS002A

  • Kimjolly Lhouvum.; Vibin Ramakrishnan & Vishal Trivedi. Insight  into  structural  and  biochemical  determinants  of  substrate specificity  of  PFI1625c:  Correlation  analysis  of  protein-peptide molecular  models.  Journal of Molecular Graphics & Modelling (2013) 43, 21-30

  • Vibin Ramakrishnan, Saeed Salem; Saipraveen Srinivasan, Mohammed Zaki, Suzanne Mathews, Wilfredo Colon and Christopher Bystroff. Developing a detailed mechanistic model for protein unfolding. Proteins: Structure Function & Bioinformatics (2012), 80, 920-934.

  • Anil Kumar and Vibin Ramakrishnan. Alternate protein scripts with unnatural alphabets. Systems & Synthetic Biology (2010), 4(4), 247-256.

  • Aimy Sebastian, Andreas Bender and Vibin Ramakrishnan; Virtual Activity Profiling of Bioactive Molecules by 1D Fingerprinting. Molecular Informatics (2010) 29, 773-779.

  • Aimy Sebastian & Vibin Ramakrishnan. Computational Biology Applications. Nutri Horti-culture. Ed. K. V. Peter. DPH New Delhi. (2012)  pp 123-142

  • Anil Kumar; Vibin Ramakrishnan; Ranjit Ranbhor and Susheel Durani. Homochiral Stereochemistry: The Missing Link of Structure to Energetics in Protein Folding. Journal of Physical Chemistry B (2009) 113 (51), pp 16435–16442.

  • Vibin Ramakrishnan, Saeed Salem, Saipraveen Srinivasan, Wilfredo Colon, Mohammed Zaki & Christopher Bystroff. GEOFOLD: A Mechanistic Model to Study the Effect of Topology on Protein Unfolding Pathways and Kinetics. 3DSig. Structural Biology & Computational Biology (2008) 25-26.

  • Ranjit Ranbhor; Vibin Ramakrishnan; Anil Kumar and Susheel Durani. The Interplay of Sequence and Stereochemistry in defining Conformation in Proteins and Polypeptides.  Biopolymers (2006) 83, 537-545.

  • Vibin Ramakrishnan; Ranjit Ranbhor; Anil Kumar and Susheel Durani. The link between Sequence and Conformation in Protein Structures appears to be Stereochemically Established.  Journal of Physical Chemistry B (2006) 110, 9314-9323.

  • Vibin Ramakrishnan; Ranjit Ranbhor and Susheel Durani.  Probing Main Chain Roles in Protein Structure and Folding Stereochemically. A Simulated Annealing Folding Study of Isotactic, Syndiotactic and Heterotactic Polypeptides. Biopolymers (2005) 78, 96-105.

  • Vibin Ramakrishnan; Ranjit Ranbhor and Susheel Durani.  Existence of Specific "Folds" in Polyproline-II Ensembles of an Unfolded Alanine Peptide Detected by Molecular Dynamics.  Journal of the American Chemical Society (2004) 126, 16332-16333.