Research Publications

 

List of Publications of Prof. Gurunath Ramanathan (as of 02/11/2020)

 

  1. Keerti Mishra, Chetan Kumar Arya, R. Subramaniam and Gurunath Ramanathan*(2020) Structures of an extradiol catechol dioxygenase- C23O64, from 3-nitrotoluene degrading Diaphorobacter sp. strain DS2 in substrate-free, substrate-bound and substrate analog-bound states. Experimental Results, 1, e48, DOI: 10.1017/exp.2020.50.

     

  2. Kutti. R. Vinothkumar*, C. A. Arya, R. Subramaniam* and Gurunath Ramanathan (2020), Comparison of CryoEM and X-ray structures of dimethylformamidase. Progress in Biophysics and Molecular Biology in press (https://doi.org/10.1016/j.pbiomolbio.2020.06.008)

     

  3. Chetan Kumar Arya, Swati Yadav, Jonathan Fine, Ana Casanal, Gaurav Chopra, Gurunath Ramanathan*, Kutti R. Vinothkumar*, and Ramaswamy Subramanian* (2020) A 2-Tyr-1-Carboxylate Mononuclear Iron Center is the Active Site of Dimethylformamidase. Angewantde Chemie Int. Ed. Engl. 59, 16961-16966. doi.org/10.1002/anie.202005332

     

  4. Kiran Lata, Anamika Kushwaha and Gurunath Ramanathan* (2020) Bacterial enzymatic degradation and remediation of 2,4,6-trinitrotoluene Chapter 23 in microbial and natural macromolecules, Elsevier. Chapter 23, 623-659.

     

  5. Kalpana Tomar and Gurunath Ramanathan* (2019), New Self-Assembled Archetypes in Crown Ether Substituted ΔZ- Phe Containing Tripeptides Journal of Chemical Sciences, 131(47), 1-7.

     

  6. Ashish Singh, Raghav Gupta, Nazia Siddiqui, S. S. K. Iyer and Gurunath Ramanathan (2019) , Tuning thin film properties by structural modulations in red fluorescent protein chromophore analogues. Chemistry Select 4(5), 13320-13326p;

     

  7. Rishi Kant, Geeta Bhatt, Vinay Kumar Patel, Anurup Ganguli, Deepak Singh, Monalisha Nayak, Keerti Mishra, Ankur Gupta, Keshab Gangopadhyay, Subhra Gangopadhyay, Gurunath Ramanathan and Shantanu Bhattacharya* (2019). Synchronized electromechanical shock wave-induced bacterial transformation, ACS Omega 4(5), 8512-8521.

     

  8. Geeta Bhatt, Keerti Mishra, Gurunath Ramanathan, Shantanu Bhattacharya*, (2019) Dielectrophoresis assisted impedance spectroscopy for detection of gold-conjugated amplified DNA samples, Sensors and Actuators B: Chemical, 288, 442-453.

     

  9. Kalpana Tomar, G Kaur, S Verma*, Gurunath Ramanathan* (2018), A self-assembled tetrapeptide that acts as a “turn-on” fluorescent sensor for Hg2+ ion. Tetrahedron letters 59 (41), 3653-3656.

     

  10. Amit Kumar Sonkar, M. Mezigebu Belay, Kalpana Rathore, Kousar Jahan, Sankalp Verma, Gurunath Ramanathan and Vivek Verma* (2018) Crosslinking of Agar by diisocyanates. Carbohydrate Research (2018) 202, 454-460.

     

  11. Garima Tripathi and Gurunath Ramanathan* (2018), Crystallographic studies on complexes of potassium iodide and copper perchlorate with N, Nʹ-dicyclohexylurea tethered to a benzo-12-crown-4 J. Molecular Structure, 1156, 273-279

     

  12. Kalpana Tomar, Satyendra Soni, Pratibha Bhadauriya, Rashmi Parihar, S. Ganesh, N. Nair and Gurunath Ramanathan* (2017) Mercuric ion sensing by an overlapping -turn containing peptide. ChemistrySelect 2, 8072-8075.

     

  13. Geeta Bhatt, Rishi Kant, Keerti Mishra, Kuldeep Yadav, Deepak Singh, Gurunath Ramanathan and Shantanu Bhattacharya* (2017) Impact of surface roughness on Dielectrophoretically assisted concentration of microorganisms over PCB based platforms Biomedical Microdevices, 19(2), 1-11.

     

  14. Archana Kumari, Deepak Singh, S. Ramaswamy and Gurunath Ramanathan* (2017) Structural and functional studies of ferrodoxin and oxygenase components of 3-nitrotoluene dioxygenase from Diaphorobacter sp. Strain DS2. PLOS ONE 12(4): e0176398, pages 1-16.

     

  15. Ashish Singh and Gurunath Ramanathan* (2017) Red fluorescence protein chromophore inspired selective optical chemosensor for Cu2+ and Hg2+ metal ions. J. Luminescence, 182, 220-225.

     

  16. Gurunath Ramanathan* and Ashish Singh (2016) A multistep synthesis of imidazolin-5-ones in a text book titled “Comprehensive organic chemistry experiments for the laboratory classroom” by the Royal Society of Chemistry; Editors F. Canfoso, N. R. Candeias, D. R., Simao, A. F. Trindade, J. A. S. Coelho, B. Tan and R. Fransen (2016), pages 403-407. ISBN 978-1-84973-963-4.

     

  17. Ashish Singh and Gurunath Ramanathan* (2016). Rational design of heterogeneous silver catalysts by exploitation of counteranion-induced coordination geometry Asian Journal of Organic Chemistry Online: 9 MAY 2016 | DOI: 10.1002/ajoc.201600173.

     

  18. G. Tripathi, K. Badi-Uz-Zama and Gurunath Ramanathan* (2016) N…N pnicogen bonds in Boc-DOPA-OMe. Chemical Physics Letters, 653, 117-121.

     

  19. Deepak Singh, Keerti Mishra and Gurunath Ramanthan* (2015). Bioremediation of nitroaromatic compounds in Wastewater Treatment Engineering, Mohamed Samer (Ed.), InTech, DOI: 10.5772/61253 pages 51-83.

     

  20. N. Siddiqui, V. Singh, M. M. Deshmukh, Gurunath Ramanathan*, Structures, stability and hydrogen bonding in inositol conformers (2015), Physical Chemistry Chemical Physics, Vol. 17, 18514-18523.

     

  21. G. Tripathi, A. Tripathi, Gurunath Ramanathan*, S. K. Chaube, A 12-Crown-4 ether containing dipeptide Boc-12-Crown-4-L-DOPA-Gly-OMe induces cell cycle arrest and apoptosis in rat eggs cultured in vitro (2016), International Journal of Peptide Research and Therapeutics, 22, 57-66.

     

  22. A. Duley, V. Gowda, A. Ganjiwale, S. Raghothama, Gurunath Ramanathan* (2015), Effect of methylene group insertions on the structural rigidity of Aib containing helices, Biopolymers, 104, 720-732.

     

  23. Ashish Singh, Basanta Kumar Rajbongshi and Gurunath Ramanathan* (2015) Introduction of an electron push-pull system yields a planar Red Kaede fluorescence protein chromophore analogue stabilized by a C=O...π interaction. Journal of Chemical Sciences, 127, 941-948.

     

  24. Garima Tripathi and Gurunath Ramanathan* (2015) Structures and conformation of a Benzo-12-Crown-4 containing dipeptide. Biopolymers: Peptide Science, 103 (3), 148-155.

     

  25. Ashish Singh, Basanta K. Rajbongshi and Gurunath Ramanathan* (2014) Tuning of intermolecular interactions results in packing diversity in imidazolin-5-ones J. Chem. Sci. 126 (5), pp. 1275–1284.

     

  26. Deepak Singh, Archana Kumari, Subramaniam Ramaswamy and Gurunath Ramanathan* (2014) Expression, Purification and substrate specificities of 3-nitrotoluene dioxygenase from Diaphorobacter sp. strain DS2
Biochem. Biophys. Res. Commun. 445 (1), 36-45.

     

  27. Deepak Singh, Archana Kumari, Gurunath Ramanathan* (2014)
3-Nitrotoluene dioxygenase from Diaphorobacter sp. strains: cloning, sequencing and evolutionary studies Biodegradation 25(4), 479–492.

     

  28. Deepak Singh and Gurunath Ramanathan* (2013) Biomineralization of 3-nitrotoluene by diaphorobacter species Biodegradation, 24(5), 645-655.

     

  29. Gurunath Ramanathan* and Anju Duley, A. (2013)
Cyclic beta aminoacids as conformational constraints. 
Biomolecular Forms and Function - A celebration of 50 years of the Ramachandran Map. IISc Press-WSPC publication Pages: 282-295 Published: January 2013.

     

  30. Monalisha Nayak, Deepak Singh, Himanshu Singh, Rishi Kant, Ankur Gupta, Shashank Shekhar Pandey, Swarnasri Mandal, Gurunath Ramanathan* and Shantanu Bhattacharya* (2013)
Integrated sorting, concentration and real time PCR based detection system for sensitive detection of microorganisms. Scientific Reports, 3, Art. 3266

     

  31. Basanta K. Rajbongshi, N. Nair, M. Nethaji and Gurunath Ramanathan* (2012)
Segregation into chiral enantiomeric conformations of an achiral molecule by concomitant polymorphism. Cryst. Growth and Design, 12, 1823-1829.

     

  32. ShahnawazRafiq, B. K. Rajbonghshi, N. N. Nair, P. Sen and Gurunath Ramanathan* (2011)
Excited state relaxation dynamics of model green fluorescent protein chromophore analogs: evidence for cis- trans isomerism.
J. Phys. Chem. (A) 115, 13733-13742.

     

  33. Anju Duley, M. Nethaji and Gurunath Ramanathan* (2011)
A change in the 310- to α- helical transition point in the heptapeptides containing sulfur and selenium Cryst. Growth and Design, 11, 2238-2240.

     

  34. Rajbhongshi, B.K. P. Sen and Gurunath Ramanathan* (2010)
Twisted intramolecular charge transfer in a model green fluorescent protein luminophore analog Chem. Phys. Lett. 494, 295-300.

     

  35. Mondal S., Shivswaroop, Verma S. and Gurunath Ramanathan* (2010)
A synthetic ditryptophan conjugate that rescues bacteria from mercury toxicity through complexation. Tetrahedron Letters, 51, 6111-6115.

     

  36. Shivswaroop, Sughosh P and Gurunath Ramanathan* (2009) Biomineralization of N,N-dimethylformamide by paracoccus sp. Strain DMF J. Hazardous materials. 171, 268-272.

     

  37. B. K. Rajbhongshi and Gurunath Ramanathan*(2009) Designed modulation of interactions in the crystal structures of a series of 4-benzylidene imidazolin-5-ones. J. Chemical Sciences 121, 973-982.

     

  38. Vibhor Jain, Basanta Kumar Rajbongshi, Arun Tej Mallajosyula, Gitalee Bhattacharjya, S Sundar Kumar Iyer and Gurunath Ramanathan* (2008) Photovoltaic effect in single layer organic solar cell devices fabricated with two new imidazolin-5-one molecules. Solar energy materials and solar cells 92, 1043-1046.

     

  39. Jassi, M., Gurunath, Ramanathan, Sundar Kumar Iyer, S (2008) Degradation Study of Organic Semiconductor Devices Under Electrical and Optical Stresses Electron Display Letters 29, 442-444.

     

  40. Bhattacharjya G., Arun Tej, S.S.K. Iyer and Gurunath Ramanathan* (2006) Imidazolin-5-ones in organic semiconducting diodes Molecules to materials- Proceedings of the international conference on molecules to materials 2006 at at Sant Longowal Instittue of Engineering and Technology. Longowal, Punjab. pp 8-12.

     

  41. Bhattacharjya G., Agasti S.S., Savitha G. and Gurunath Ramanathan*(2006) A solvent free lewis acid catalyzed vinylogous condensation ARKIVOC 6, 152-161.

     

  42. Vibhor Jain , Gitalee Bhattacharjya , Arun Tej 2, CK Suman , Gurunath Ramanathan, B Mazhari and SSK Iyer (2006) Study of Optical and Electrical Properties of Imidazolin-5-one Molecules for Optoelectronic Applications”, Proceedings Asian Symposium on Information Display(ASID), 2006, 244-247.

     

  43. Singh, P, Iyengar, L., Birkeland, N. and Gurunath Ramanathan*(2006) Mineralization of Sulphanilic acid by Agrobacterium sp. Strain PNS -1 Biodegradation, Feb 2006, 1 – 8.

     

  44. Bhattacharjya G, Savitha G and Gurunath Ramanathan*(2005) C-H....O interactions are favoured over C=O....C interactions in the crystal packing of imidazolin-5-one analogues J. Molecular Structure 752, 101-106.

     

  45. Yadav, K., Iyengar, L., Birkeland, N. and Gurunath Ramanathan*(2005) Accumulation of metabolic intermediates of p-Cresol in the culture medium by a Pseudomonas sp. strain A isolated from the activated sludge of a domestic waste water treatment plant. World J. Microbiology and biotechnology 21(8-9), 1529-1534.

     

  46. Bhattacharjya G, Savitha G and Gurunath Ramanathan*(2004) Short C=O•••C intermolecular contacts for molecular assembly CrytEngComm, 6(40), 233-235.

     

  47. Pekkari K, Javier Avila-Cariňo, Gurunath Ramanathan, Åsa Bengtsson Annika Scheynius and Arne Holmgren(2003) Truncated thioredoxin (Trx80) exerts unique mitogenic cytokine effects via a mechanism independent of thiol oxido-reductase activity, FEBS Letters, 539(1-3), 143-148.

     

  48. Pekkari K, Javier Avila-Cariňo, Åsa Bengtsson, Gurunath Ramanathan, Annika Scheynius and Arne Holmgren (2001) Truncated thioredoxin (Trx80) activates human resting monocytes and induces Interleukin 12 production Blood, 97(10), 3184-3190.

     

  49. Pekkari K, Gurunath Ramanathan, Arnér ESJ & Holmgren A (2000) Truncated Thioredoxin Is a Mitogenic Cytokine for Resting Human Peripheral Blood Mononuclear Cells and Is Present in Human Plasma J. Biol. Chem., 2000 275: 37474-37480.

     

  50. Bertini R, Howard ZOM, dong H-F, Oppenheim JJ, Bizzari C, Sergi R, Caselli G, Pagiliei S, Romines B, Wilshire JA, Mengozzi M, Nakamura H, Yodoi J, Pekkari K, Gurunath Ramanathan, Holmgren A, Herzenberg LA, Herzenberg LA and Ghezzi P. (1999) Thioredoxin a redox enzyme released in infection and inflammation, is a unique chemoattractant for neutrophils, monocytes and T cells. J. Experimental Medicine, (1999) 189 (7), 1783-1789.

     

  51. Karle IL, Gurunath Ramanathan, Prasad S, Rao RB and Balaram P (1996) Crystal structures of a nonapeptide helix containing α,α-di-n-butylglycine (Dbg), Boc-Gly-Dbg-Ala-Val-Ala-Leu-Aib-Val-Leu-OMe Int. J. Peptide. Protein Res., 47, 376-382.

     

  52. Datta S, Shamala N, Gurunath Ramanathan and Balaram P (1996) Observation of a mixed antiparallel and parallel β- sheet motif in the crystal structure of Boc-Ala-Ile-Aib- OMe. Int. J. Peptide. Protein Res., 48, 209-214.

     

  53. Gurunath Ramanathan and Balaram P (1995) A nonhelical, multiple β-turn conformation in a glycine-rich heptapeptide fragment of Trichogin A IV containing a single central α -aminoisobutyric acid residue. Biopolymers, 35(1), 21-9.

     

  54. Karle IL, Gurunath Ramanathan, Prasad S, Kaul R, Rao B and Balaram P (1995) Peptide design: Structural evaluation of potential non-helical segments attached to helical modules. J. Am. Chem. Soc., 117, 9632-9637.

     

  55. Gurunath Ramanathan, Beena TK, Adiga PR and Balaram P (1995) Enhancing peptide antigenicity by helix stabilization. FEBS Lett., 361(2-3), 176-178.

     

  56. Karle IL, Flippen-Anderson JL, Gurunath Ramanathan and Balaram P (1994) Facile transition between 310- and α-helix: structures of 8-, 9-, and 10-residue peptides containing the -(Leu- Aib-Ala)2 Phe-Aib- fragment. Protein Science, 3(9), 1547-1555.

     

  57. Gurunath Ramanathan & Balaram P (1994) Incorporation of a potentially helix breaking D-Phe-Pro sequence into the center of a right-handed 16 residue peptide helix. Biochem Biophys Res Commun., 202(1) 241-245.

     

     

    Patents filed from IIT Kanpur

     

  58. ‘An improved organic optoelectronic device using Imidazolin-5-one molecules with other molecules’ has been filed at Delhi. Patent # 3263/ RQ – DEL 2007. From Indian Pat. Appl. (2009), IN 2007DE01231 A 20090116

     

  59. ‘An integrated microchip for the detection of a biological cell’ Indian Pat. Appl. (2016), IN 2013DE01787 A 20160708

     

  60. “Tyrosinase inhibitors” From PCT Int. Appl. (2017), WO 2017108316 A1 20170629.

     

  61. “A process for preparation of bioplastics” Indian patent granted in 2020 patent # 338729

     

    Other Publications from IIT Kanpur

     

  62. Other problems with Nobel Prizes as a letter to the editor in C & E news 87 (7), February 2009.

     

     

      List of papers published in conference proceedings and other newsletters

     

  63. Chidvilas, K.A.K., Mani, P., Iyer, S.S.K. , Rajbongshi, B.K. , Gurunath, Ramanathan (2009) Bilayer organic solar cells based on imidazolin-5-one molecules Conference record of the IEEE photovoltaic specialists conference Art. No. 5411205; 1069-72.

     

  64. Shantanu Bhattacharya, Arnab Ghosh, Deepak Singh, Tarak Kr. Patra, J. K. Singh, Gurunath Ramanathan (2009) Electrophoretic transport of Nucleic acids through nano-structured surfaces. Proceedings- AICHE 2009, 306C, Annual Meeting of American electrophoresis society, Nashville, Tenessee, USA. 510-524.

     

  65. Shantanu Bhattacharya, Swarnasri Mandal, Deepak Kr. Singh, Gurunath Ramanathan, (2009) Dielectrophoretic separation of nanoparticles conjugated bacterial cells within micro scale architecture", Proceedings- AICHE 2009, 72H, Electrokinetic behaviour of micro/nano particles: Fundamentals and applications, Nashville, Tenessee, USA; 208-215

     

  66. Anil B. Ghubade, Swarnasri Mandal, Shreya Ghoshdostidar, Rajeev Kumar Singh, Deepak Singh, Gurunath Ramanathan, Shantanu Bhattacharya (2009) Bio-chip for fluorescence based quantitation of fluorescent microbeads", Indian Institte of Technology- Kanpur, ICMEMS-2009.

     

  67. Vibhor Jain , Gitalee Bhattacharjya , Arun Tej , CK Suman , Gurunath Ramanathan, B Mazhari and SSK Iyer (2006)Study of Optical and Electrical Properties of Imidazolin-5-one Molecules for Optoelectronic Applications”, Proceedings Asian Symposium on Information Display(ASID), 2006, 244-247.

     

  68. Studies on Selenocysteine containing active site peptides of thioredoxin reductase K. N. K. Harekrishnen and Gurunath Ramanathan (2005) In phosphorous, sulfur and silicon and other related elements 180, 1088.