Dr. Amal Kumar Bandyopadhyay

Name: AMAL KUMAR BANDYOPADHYAY

Highest Degree: Doctor of Philosophy (University of Mumbai)

Date of Birth: 02. 01. 1966

Category: General

Present address with email : Vill. Chawkbalaram; PO-Bohar; Dist: Burdwan; 713430, akbanerjee40@gmail.com;

College/University & research

B.Sc. (Ag) (Hons.) and post-degree training in Agril Farm (ATC, Fulia, Nadia, WB) Bidhan Chandra Krishi Viswavidyalaya, Mohanpur, Nadia, WB Availed the University merit scholarship 1991 81.6% -1st Class

M.Sc. (biochemistry) [course: 46 credit hrs & Research: 25 credit hours (mandatory)] Department of Chemistry & Biochemistry; Haryana Agril. University, Hisar, Haryana; Joined the master program, as an ICAR-nominated candidate, and availed the ICAR-JRF awarded the fellowship for MSc, 1991-1993. 1993-84.2%-1st Class [Thesis-title: “Effect of Naringenin and Nitrate on Pisum sativum L.-Rhizobium Symbiosis.”]

Publication: Nitrate alters the flavonoid profile and nodulation in pea (Pisum sativum L.), AK

Bandyopadhyay, V Jain, HS Nainawatee, Biology and fertility of soils (Springer), 21 (3), 189 Ph.D. (physical chemistry)

Graduate course (1 & ½ years) (mandatory) & completion of which, lead to Research-works Department of Chemical Sciences, Tata Institute of Fundamental Research, Mumbai, 400005. 1994-1996 Graduate-program requirements completed satisfactorily & allowed for PhD registration 1st class (A+) - (B+) Grade-sheet for course work and project was provided by the board of studies, TIFR prior registration in Ph.D.

a. 3-semester graduate courses program (6 core courses in chemistry and 3, projects

b. Research on halophilic protein ferredoxin

Availed the award of a research Honorarium for the period 1994-2000 (per year based review). 1996-2001nPh.D. awarded by the University of Mumbai Completed Thesis-title: “Stabilization of Halophilic Proteins: [2Fe-2S] Ferredoxin as Paradigm”

Publication:

1. Salt dependent stability and unfolding of [Fe2-S2] ferredoxin of Halobacterium salinarum: Spectroscopic investigations, AK Bandyopadhyay and HM Sonawat, Biophysical journal(ABS), 79 (1), 501

2. Structural stabilization of [2Fe-2S] ferredoxin from Halobacterium salinarum, AK Bandyopadhyay, G Krishnamoorthy and HM Sonawat, Biochemistry(ACS), 40 (5), 1284

3. Kinetics of salt-dependent unfolding of [2Fe–2S] ferredoxin of Halobacterium salinarum, AK Bandyopadhyay, G Krishnamoorthy, LC Padhy and HM Sonawat, Extremophiles (Springer), 11 (4), 615

Post-Doctoral research I. Post: Visiting Fellow

Employer: Department of Chemical Sciences, Molecular Biophysics Unit, Tata Institute of Fundamental Research, Mumbai, 400005; Research Guide: Prof. H. M. Sonawat; Maximum- Period: 6 Months (availed only 1.5 months); Research: Biophysical investigation on Halophilic

Annexure – 267

Protein, [2Fe-2S]-ferredoxin

II. Post- Post: Doctoral Research Associate Employer: Howard Hughes Medical Institute, in the Department of Chemistry, RUTGERS, NJ, USA

Research Guide: Prof. Richard H. Ebright; Maximum-Period allowed: 3 years (availed 3 years) Research: Transcription elongation using the synthetic ternary complex of DNA, RNA, RNA polymerase

Publications

1. Gupta PS, Banerjee S, Islam RN, Sur VP, Bandyopadhyay AK. 2017. Substitutional analysis of orthologous protein families using BLOCKS. Bioinformation.;13(1):1. IF. 5.9

2. Ansary I, Roy H, Das A, Mitra D, Bandyopadhyay AK. 2019. Regioselective Synthesis, Molecular Descriptors of (1, 5‐Disubstituted 1, 2, 3‐Triazolyl) Coumarin/Quinolone Derivatives and Their Docking Studies against Cancer Targets. Chemistry Select. 29;4(12):3486-94. IF. 3.79

3. Banerjee S, Gupta PS, Bandyopadhyay AK. 2017. Insight into SNPs and epitopes of E protein of newly emerged genotype-I isolates of JEV from Midnapur, West Bengal, India. BMC immunology. 18(1):1-6. IF. 2.07

4. Islam RN, Roy C, Gupta PS, Banerjee S, Mitra D, Banerjee S, Bandyopadhyay AK. 2018. PROPAB: Computation of Propensities and Other Properties from segments of 3D structure of Proteins. Bioinformation.14(5):190. IF. 5.9

5. Bandyopadhyay AK, Islam RN, Mitra D, Banerjee S, Goswami A. 2019. Structural insights from water-ferredoxin interaction in mesophilic algae and halophilic archaea. Bioinformation. 15(2):79. IF. 5.9

6. Bandyopadhyay AK, Islam RN, Mitra D, Banerjee S, Yasmeen S, Goswami A. 2019. Insight into the Salt Bridge of Malate Dehydrogenase from Halobacterium salinarum and Escherichia coli. Bioinformation. 15(2):95-103. IF. 2.07.

7. Banerjee S, Mondal B, Islam RN, Gupta PS, Mitra D, Bandyopadhyay AK. POWAINDv1. 0: A 2018. Program for Protein-Water Interactions Determination. Bioinformation.14(9):530

8. Bandyopadhyay AK, Islam RN, Mitra D, Banerjee S, Goswami A. 2019. Stability of buried and networked salt-bridges (BNSB) in thermophilic proteins. Bioinformation.15(1):61. IF. 5.9

9. Bandyopadhyay AK, Islam RN, Mitra D, Banerjee S, Goswami A. 2019. Structural insights from water-ferredoxin interaction in mesophilic algae and halophilic archaea. Bioinformation.15(2):79. IF.5.9

10. Ansary I, Roy H, Das A, Mitra D, Bandyopadhyay AK. Regioselective Synthesis. 2019 Molecular Descriptors of (1, 5‐Disubstituted 1, 2, 3‐Triazolyl) Coumarin/Quinolone Derivatives and Their Docking Studies against Cancer Targets. Chemistry Select. 29;4(12):3486-94. IF. 2.01

11. Sen Gupta PS, Islam RN, Banerjee S, Nayek A, Rana MK, Bandyopadhyay AK.2020. Screening and molecular characterization of lethal mutations of human homogentisate 1, 2 dioxigenase. Journal of Biomolecular Structure and Dynamics. 18;39(5):1661-71. IF. 5.9

12. Bandyopadhyay AK, Islam RN, Hazra N. 2020. Salt-bridges in the microenvironment of stable protein structures. Bioinformation.16(11):900-9. IF. 5.9

13. Banerjee S, Gupta PS, Islam RN, Bandyopadhyay AK. 2021. Intrinsic basis of thermostability of prolyl oligopeptidase from Pyrococcus furiosus. Scientific reports.2;11(1):1-4.IF. 4.4

Book Chapters/ Conference Proceedings

1. S Banerjee, D Mitra, AK Bandyopadhyay. Electronic properties of flavonols: quantum mechanical studies. IOCBS 2018 Conference Proceedings, 2018-07-22 | book-chapter

2. D Mitra, AK Bandyopadhyay, RN Islam, S Banerjee S Yasmeen, PK Mohapatra. Structure, salt-bridge’s energetics and microenvironments of nucleoside diphosphate kinase from halophilic, thermophilic and mesophilic microbes. In Biotechnology and Biological Sciences, 2019 Nov 20 (pp. 107-113). CRC Press.

3. RN Islam, C Roy, D Mitra, AK Bandyopadhyay, S Yasmeen, Banerjee S. Salt-bridge, aromatic-aromatic, cation-π and anion-π interactions in proteins from different domains of life. In Biotechnology and Biological Sciences, 2019 Nov 20 (pp. 152-158). CRC Press

4. S Banerjee, A Goswami, D Mitra, S Bhattacharyya, AK Bandyopadhyay, S Yasmeen, RN Islam, I Ansary. Improvement of drug by descriptors and docking criteria: Benzoazetinone-P450 system as a paradigm. In Biotechnology and Biological Sciences 2019 Nov 20 (pp. 147-151). CRC Press.

Reviewer service in peer-reviewed Journal:

1. GENE (H-idex:177, IF:2.3); Publisher: Elsevier

2. JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS (H-Idex:69, IF:5.0);

3. THE PROTEIN JOURNAL (H-Index:52; IF:2.3); Publisher: Springer

4. INDIAN JOURNAL OF MICROBIOLOGY (H-Index:46; IF:1.0); Springer India

5. JOURNAL OF NEUROIMMUNOLOGY (H-Index:140; IF:3.13); Publisher: Elsevier

6. PLOS ONE (H-Index:332; IF:3.2); Publisher: Elsevier

7. BIOINFORMATION (H-Index:34; Av. Citation/item:5.9); Publisher: Biomedical Informatics (P) Ltd.

Awards and Honors (Last 5 years)

1. Best Full Paper Award in IOCBS 2018 Conference Proceedings; ISBN: 978-81-934141-1-8; Rayder Publication

2. Invited Keynote Authorship in IOCBS 2018 Conference Proceedings; ISBN: 978-81-934141- 1-8; Rayder Publication.

3. Invited Whole-day Lecture series In the Department of Biological Sciences, Indian Statistical Institute, Kolkata on 9th July 2018.

4. Best oral presentation award in Biospectrum conference on 8th - 10th August 2019 at the University of Engineering & Management, Kolkata, India

5. Best oral presentation award in the National Seminar on Advent of Biotechnology in Life Processes (NSABLP 2018), 22-23 March, 2018.

6. Best poster presentation award in the National Seminar on Advent of Biotechnology in Life Processes (NSABLP 2018), 22-23 March, 2018.

7. Best oral presentation award in the Frontiers in Biological, Environmental and Medical Sciences (FBEMS), 2018.

Ph.D. Degree

The following Scholars received their Doctoral degree in Biotechnology in the 2017 convocation of the University of Burdwan, under my co-guideship

1. Arnab Nayek: Thesis title: Bioinformatic Analysis of Sequence and Structure of Halophilic protein in comparison to Mesophilic ones

2. Shyamashree Banerjee: Thesis Title: Immunoinformatics and Bioinformatics studies on Proteins from Virus,

Bacteria, and Archaea Immunoinformatics and Bioinformatics studies

3. Parth Sarthi Sen Gupta: Thesis Title: Mechanism of substitution and substitution matrices: theory and practice by bioinformatics approaches.