Training on Faster COVID-19 Testing
CSIR - Centre for Cellular & Molecular Biology
Council of Scientific and Industrial Research
Ministry of Science & Technology, Govt. of India
J C Bose Fellow
Email: nraj@ccmb.res.in
Phone: +91-040-27192589
Research Interests
STRUCTURE - FUNCTION CORRELATIONS IN PEPTIDE ANTIBIOTICS : Our research has been directed towards structure-function correlations in antibacterial peptides with the objectives of (i) delineating regions that could be important for activity and (ii) designing peptides ~15 residues or less that would have selective antimicrobial activity. Our results indicate that it is possible design membrane-active peptides with selective activity against bacteria and have therapeutic potential. INTRACELLULAR SORTING OF PROTEINS: multiple palmitoylation of cellular proteins controls many important cellular events. We have shown that peptides containing palmitoylation sites could serve as useful models for understanding the role of this intriguing modification in cell biology. SELF-ASSEMBLY PROCESS IN PEPTIDES AND PROTEINS :Our research in this area has shown that self-assembled structures of peptides with varying morphologies and electrical properties can be obtained by judicious choice of solvents for dissolution and surfaces for deposition.
Selected Publications
Sitaram, N., and Nagaraj, R. (1999) Interaction of antimicrobial peptides with biological and model membranes: structural and charge requirements for activity. Biochim Biophys Acta 1462, 29-54.Mandal, M., Jagannadham, M. V., and Nagaraj, R. (2002) Antibacterial activities and conformations of bovine beta-defensin BNBD-12 and analogs:structural and disulfide bridge requirements for activity. Peptides 23, 413-418.
Pallavi, B., and Nagaraj, R. (2003) Palmitoylated peptides from the cysteine- rich domain of SNAP-23 cause membrane fusion depending on peptide length, position of cysteines, and extent of palmitoylation. J Biol Chem 278, 12737-12744.
Sowmya, B. L., Jagannadham, M. V., and Nagaraj, R. (2006) Interaction of synthetic peptides corresponding to the scaffolding domain of Caveolin-3 with model membranes. Biopolymers 84, 615-624.
Chaudhary, N., Singh, S., and Nagaraj, R. (2008) Organic solvent mediated self-association of an amyloid forming peptide from beta(2)-microglobulin: An atomic force microscopy study. Biopolymers 90, 783-791.
Education & Experience
| P.G: | Chemistry ; IIT Bombay ; 1975 |
| Ph.D: | Stereochemically constrained amino acids ; IISc Bangalore ; 1980 |
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| Title | Journal | Year |
|---|---|---|
| Mass Spectral Analysis of Synthetic Peptides: Implications in Proteomics | Journal of biomolecular techniques: | 2021 |
| Downregulation of Defensin genes in SARS-CoV-2 infection | medRxiv | 2020 |
| Mass Spectral Analysis of Synthetic Peptides: Implications in Proteomics. . d | J Biomol Techniques | 2020 |
| Water-Alcohol Bigels from Fatty Acylated Dipeptides. . | J Phys Chem B. | 2020 |
| Escherichia coli Lipopolysaccharide Modulates Biological Activities of Human-β-Defensin Analogues but Not Non-Ribosomally Synthesized Peptides. | ACS Omega | 2020 |
| Water-Alcohol Bigels from Fatty Acylated Dipeptides | The Journal of Physical Chemistry B | 2019 |
| Self‐assembly of β‐turn motif‐connected tandem repeats of Aβ16‐22 and its aromatic analogs | Peptide Science | 2019 |
| Hydrogel Formation by an Aromatic Analogue of a β-Amyloid Fragment, Aβ16 | ACS Omega | 2019 |
| Limpid hydrogels from β-turn motif-connected tandem repeats of Aβ 16–22 | Soft matter | 2019 |
| On the intrinsic propensity of the Asn-Gly sequence to fold into type I′ β-turn: molecular dynamics simulations of Asn-Gly β-turn containing peptide sequences | Journal of Biomolecular Structure and Dynamics | 2018 |
| Effects of increasing hydrophobicity by N‐terminal myristoylation on the antibacterial and hemolytic activities of the C‐terminal cationic segments of human‐β‐defensins 1–3 | Chemical biology & drug design | 2018 |
| Characterization of acetylated histidine b1-ion structure: A competition between oxazolone and side chain imidazole moiety | European Journal of Mass Spectrometry | 2018 |
| Detection of peptides with intact phosphate groups using MALDI TOF/TOF and comparison with the ESI-MS/MS | European Journal of Mass Spectrometry | 2018 |
| Self-assembly of t-butyloxycarbonyl protected dipeptide methyl esters composed of leucine, isoleucine, and valine into highly organized structures from alcohol and aqueous | Peptide Science | 2017 |
| Chimeric analogs of human β-defensin 1 and θ-defensin disrupt pre-established bacterial biofilms | Bioorganic & medicinal chemistry letters | 2017 |
| Variations in the interaction of human defensins with | PloS one | 2017 |
| Formation of nanostructures by peptides | Current Protein and Peptide Science | 2017 |
| Impact on the replacement of Phe by Trp in a short fragment of Abeta amyloid peptide on the formation of fibrils. | J Pept Sci 17, 115-123 | 2011 |
| Self-assembly of short amyloidogenic peptides at the air-water interface. | J Colloid Interface Sci 360, 139-147 | 2011 |
| Aggregation properties of a short peptide that mediates amyloid fibril formation in model proteins unrelated to disease. | J Biosci In Press | 2011 |
| A Molecular Dynamics Study of Human Defensins HBD-1 and HNP-3 in Water. | J Biomolstr Dynam 27, 541-550 | 2010 |
| Characterization of Chemical Modification of Tryptophan by Matrix-Assisted Laser Desorption/ Ionization Mass Spectrometry. | Protein & Peptide Lett 17, 168-171 | 2010 |
| Determinants of membrane association in the SH4 domain of Fyn: Roles of N-terminus myristoylation and side-chain thioacylation. | Biochim Biophys Acta. 1798,1854-1863 | 2010 |
| Antifungal activities of human beta- defensins HBD-1 to HBD-3 and their C-terminal analogs Phd1 to Phd3. | Antimicrob Agents Chemother53,256-260 | 2009 |
| Peptides: Isolation, production, and use in India. | Biotechnol J.4, 329-334. | 2009 |
| Hen lysozyme amyloid fibrils induce aggregation of erythrocytes and lipid vesicles. | Mol Cell Biochem 328,209-215. | 2009 |
| Morphology of self-assembled structures formed by short peptides from the amyloidogenic protein tau depends on the solvent in which the peptides are dissolved. | J Pept Sci 15, 675-684 | 2009 |
| Interaction of 18-residue peptides derived from amphipathic helical segments of globular proteins with model membranes. | J Biosci 34, 239-50 | 2009 |
| Detecting the Site of Phosphorylation in Phosphopeptides Without Loss ofPhosphate Group Using MALDI TOFMass Spectrometry. | Analytical Chemistry Insights 3, 21-29. | 2008 |
| Design, synthesis, conformational and membrane ion transport studies of proline-adamantane hybrid cyclic depsipeptides. | Biopolymers 89, 471-478 | 2008 |
| Interaction of antibacterial peptides spanning the carboxy-terminal region of human beta-defensins 1-3 with phospholipids at the air-water interface and inner membrane of E. coli. | Peptides 29, 7-14 | 2008 |
| Synthesis, conformational analysis and biological studies of cyclic cationic antimicrobial peptides containing sugar amino acids. | J Org Chem 73, 8731-44 | 2008 |
| Organic solvent mediated self- association of an amyloid forming peptide from beta(2)-microglobulin: An atomic force microscopy study. | Biopolymers 90, 783-791. | 2008 |
| Diphenic Acid as a General Conformational Lock in the Design of Bihelical Structures | Chemistry, 13(15): 4253-4263 | 2007 |
| Antibacterial activities of synthetic peptides corresponding to the carboxy-terminal region of human beta-defensins 1-3 | Peptides, 27(11): 2607-2613 | 2006 |
| Antibacterial activity of linear peptides spanning the carboxy-terminal beta-sheet domain of arthropod defensins | Peptides, 27(11): 2614-2623 | 2006 |
| Interaction of synthetic peptides corresponding to the scaffolding domain of Caveolin-3 with model membranes | Biopolymers, 84(6): 615-624 | 2006 |
| Conformation and activity of delta-lysin and its analogs | Peptides., 26(2): 217-25 | 2005 |
| Amphipathic alpha-helices in proteins: results from analysis of protein structures | Proteins., 59(4): 791-801 | 2005 |
| Conformation of gramicidin a in water: inference from analysis of hydrogen/deuterium exchange behavior by matrix assisted laser desorption ionization mass spectrometry | Biopolymers., 80(5): 708-13 | 2005 |
| Interaction of a pseudosubstrate peptide of protein kinase C and its myristoylated form with lipid vesicles: only the myristoylated form translocates into the lipid bilayer | Biochim Biophys Acta., 1713(2): 73-82 | 2005 |
| Detection of peptides covalently modified with multiple fatty acids by MALDI-TOF mass spectrometry | J Pept Res., 66(2): 94-100 | 2005 |
| Antibacterial activity of human neutrophil defensin HNP-1 analogs without cysteines | Antimicrob Agents Chemother., 49(11): 4561-6 | 2005 |
| Bacterial lipid modification of proteins for novel protein engineering applications | Protein Eng Des Sel., 17(10): 721-9 | 2004 |
| Palmitoylated peptides from the cysteine-rich domain of SNAP-23 cause membrane fusion depending on peptide length, position of cysteines, and extent of palmitoylation | J Biol Chem., 278(15): 12737-44 | 2003 |
| Induction of autophagic cell death in Leishmania donovani by antimicrobial peptides | Mol Biochem Parasitol., 127(1): 23-35 | 2003 |
| Cyclic homooligomers of furanoid sugar amino acids | J Org Chem., 68(16): 6257-63 | 2003 |
| Single disulfide and linear analogues corresponding to the carboxy-terminal segment of bovine beta-defensin-2: effects of introducing the beta-hairpin nucleating sequence d-pro-gly on antibacterial ac | Biochemistry., 42(31): 9307-15 | 2003 |
| Indolicidin, a 13-residue basic antimicrobial peptide rich in tryptophan and proline, interacts with Ca(2+)-calmodulin | Biochem Biophys Res Commun., 309(4): 879-84 | 2003 |
| Antibacterial activities and conformations of bovine beta-defensin BNBD-12 and analogs:structural and disulfide bridge requirements for activity | Peptides., 23(3): 413-8 | 2002 |
| NMR study of cyclic peptides with renin inhibitor activity | J Biochem Biophys Methods., 51(1): 27-45 | 2002 |
| Host-defense antimicrobial peptides: importance of structure for activity | Curr Pharm Des., 8(9): 727-42 | 2002 |
| Antibacterial activities and conformations of synthetic alpha-defensin HNP-1 and analogs with one, two and three disulfide bridges | J Pept Res., 59(3): 95-104 | 2002 |
| The therapeutic potential of host-defense antimicrobial peptides | Curr Drug Targets., 3(3): 259-67 | 2002 |
| Structure-function relationship studies on the frog skin antimicrobial peptide tigerinin 1: design of analogs with improved activity and their action on clinical bacterial isolates | Antimicrob Agents Chemother., 46(7): 2279-83 | 2002 |
| Structure-function relationship studies on the frog skin antimicrobial peptide tigerinin 1: design of analogs with improved activity and their action on clinical bacterial isolates | Antimicrob Agents Chemother., 46(7): 2279-83 | 2002 |
| Subcellular localization and physiological consequences of introducing a mitochondrial matrix targeting signal sequence in bax and its mutants | Exp Cell Res., 278(2): 198-208 | 2002 |
| A synthetic strategy for ON-resin amino acid specific multiple fatty acid acylation of peptides | Protein Pept Lett ., 9(5): 411-7 | 2002 |
| Effects of deleting a tripeptide sequence observed in muscular dystrophy patients on the conformation of synthetic peptides corresponding to the scaffolding domain of caveolin-3 | Biochem Biophys Res Commun., 298(2): 203-6 | 2002 |
| Biological activities of retro and diastereo analogs of a 13-residue peptide with antimicrobial and hemolytic activities | J Pept Res., 57(1): 59-67 | 2001 |
| Effects of salt and denaturant on structure of the amino terminal alpha-helical segment of an antibacterial peptide dermaseptin and its binding to model membranes | Indian J Biochem Biophys., 38(3): 142-8 | 2001 |
| Immunobiology of a synthetic luteinizing hormone receptor peptide 21-41 | J Androl., 22(6): 992-8 | 2001 |
| Structure-function studies on the amphibian peptide brevinin 1E: translocating the cationic segment from the C-terminal end to a central position favors selective antibacterial activity | J Pept Res., 58(5): 433-41 | 2001 |
| Double-helical cyclic peptides: design, synthesis, and crystal structure of figure-eight mirror-image conformers of adamantane-constrained cystine-containing cyclic peptide cyclo (Adm-Cyst)(3) | J Org Chem., 65(14: 4415-22 | 2000 |
| Antibacterial and hemolytic activities of single tryptophan analogs of indolicidin | Biochem Biophys Res Commun., 274(3): 714-6 | 2000 |
| Solid-phase synthesis of a modified 13-residue seminalplasmin fragment on 1,6-hexanediol diacrylate-crosslinked polystyrene support | Peptides., 21(6): 773-7 | 2000 |
| Tigerinins: novel antimicrobial peptides from the Indian frog Rana tigerina | J Biol Chem., 276(4): 2701-7 | 2000 |
| Synthesis and conformational studies of peptidomimetics containing furanoid sugar amino acids and a sugar diacid | J Org Chem., 5(22): 7710 | 2000 |
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nraj@ccmb.res.in
List of provisionally selected candidates against Notif.No:02/2022