Publications

Link to my Google Scholar profile

* denotes Corresponding / Co-corresponding author

Publications from Presidency University:

(23) Heterogeneity in winged Helix-Turn-Helix and Substrate DNA Interactions: Insights from Theory and Experiments

Journal of Cellular Biochemistry [Wiley] (Accepted, 2023)

Boral A, and Mitra D*

(22) Designing synthetic transcription factors: A structural perspective

Advances in Protein Chemistry and Structural Biology [Elsevier], 130, 245-287 (2022)

Boral A, Khamaru M and Mitra D*

(21) Basic Leucine Zippers: Aureochromes Versus the Rest

Biorxiv: 2022.06.05.494858 (2022)

Khamaru M, Deb A, and Mitra D*

(20) Assessing combinatorial diversity of Aureochrome bZIPs through genome-wide screening

Cells Tissues Organs [Karger] (2022) Biorxiv: 2022.06.05.494858 (2022)

Khamaru M, Nath D, Deb A, Mitra D* and Roy S*

(19) Identification and functional characterization of two bamboo FD gene homologs having contrasting effects on shoot growth and flowering

Scientific Reports [Nature], 11, 7849 (2021)

Dutta S, Deb A, Biswas P, Chakraborty S, Guha S, Mitra D, Geist B, Schaffner AR, Das M.

(18) Residue Interaction Dynamics in Vaucheria Aureochrome1 LOV: Bridging Theory and Experiments

Proteins: Structure, Function, and Bioinformatics [Wiley], 88, 1660-1674 (2020)

Deb A, Kaur Grewal R, Roy S* and Mitra D*

(17) Structural basis of design and engineering for advanced plant optogenetics

Trends in Plant Science [Cell Press], 25, 35-65 (2020)

Banerjee S and Mitra D*

(16) Identification, characterization and gene expression analyses of important flowering genes related to photoperiodic pathway in bamboo

BMC Genomics, 19, 190 (2018)

Dutta S, Biswas P, Chakraborty S, Mitra D, Pal A, Das M

(15) Mapping networks of light-­dark transition in LOV photoreceptors

Bioinformatics [Oxford], 31, 3608-16 (2015)

Kaur Grewal R, Mitra D* and Roy S*

(14) EXAFS and NRVS: A perfect marriage made at the Synchrotron

International X-ray Absorption Society (IXAS) research review, 10, (2013)

Mitra D and Cramer SP

Publications from my Postdoctoral Research:

(13) Characterization of the [4Fe-4S] cluster vibrations and structure in Nitrogenase Fe protein at three oxidation levels via combined NRVS, EXAFS and DFT analyses

Journal of the American Chemical Society [ACS], 135, 2530-43 (2013)

Mitra D, George SJ, Guo Y, Kamali S, Keable S, Peters JW, Pelmenschikov V, Case DA, Cramer SP

(12) Observation of the Fe-CN and Fe-CO vibrations in the active site of [NiFe] Hydrogenase by Nuclear Resonance Vibrational Spectroscopy

Angewandte Chemie International Edition [Wiley], 52, 724-8 (2013)

Kamali S, Wang W, Mitra D, Ogata H, Lubitz W, Manor BC, Rauchfuss TB, Byrne D, Bonnefoy V, Jenney Jr. FE, Adams MWW, Yoda Y, Alp E, Zhao J, Cramer SP

(11) Crystal structures of Aureochrome1 LOV suggest new design strategies for optogenetics

Structure [Cell Press], 20, 698-706 (2012)

(Among most read/downloaded articles of April, 2012 in "Structure" )

Mitra D, Yang X, Moffat K

(10) EXAFS and NRVS reveal a conformational distortion of the FeMo-cofactor in the MoFe Nitrogenase propargyl alcohol complex

Journal of Inorganic Biochemistry [Elsevier],112, 85-92 (2012)

George SJ, Barney BM, Mitra D, Igarashi RY, Guo Y, Dean DR, Cramer SP, Seefeldt LC

(9) Dynamics of the [4Fe-4S] Cluster in Pyrococcus furiosus Ferredoxin via Nuclear Resonance Vibrational Spectroscopy (NRVS) and Resonance Raman Spectroscopy – Quantitative Simulation by Density Functional Theory

Biochemistry [ACS], 50, 5220-5235 (2011).

Mitra D, Pelmentschikov V, Guo Y, Case DA, Wang H, Tang M, Ichiye T, Jenney FE Jr., Adams MWW, Yoda Y, Zhao J, Cramer SP

(8) Photolysis of Hi-CO Nitrogenase – Observation of a plethora of distinct CO Species using Infrared spectroscopy

European Journal of Inorganic Chemistry [Chemistry Europe], 2011(13), 2064-2074 (2011)

Yan L, Dapper CH, Gorge SJ, Wang H, Mitra D, Dong, W, Newton WE, Cramer SP

(7) Identification of Protein-Bound Dinitrosyl Iron Complexes by Nuclear Resonance Vibrational Spectroscopy

Journal of the American Chemical Society [ACS], 132, 6914–6916 (2010).

Tonzetich ZJ, Wang H, Mitra D, Tinberg CE, Do LH, Jenney FE Jr., Adams MWW, Cramer SP, Lippard SJ

Publications from my PhD work:

(6) An oligopeptide transporter of Mycobacterium tuberculosis regulates cytokine release and apoptosis of infected macrophages

Plos One 5(8): e12225 (2010)

Dasgupta A, Sureka K, Mitra D, Saha B, Sanyal S, Das AK, Chakrabarti P, Jackson M, Gicquel B, Kundu M, Basu J

(5) Cyclosporin A binding to Mycobacterium tuberculosis Peptidyl-prolyl cis trans isomerase A: Investigation by CD, FTIR and Fluorescence spectroscopy

FEBS Letters [FEBS press], 580, 6846 (2006)

Mitra D, Mukherjee S, Das AK

(4) Correlating sequential homology of Mce1A, Mce2A Mce3A and Mce4A with their possible functions in mammalian cell entry of Mycobacterium tuberculosis performing homology modeling

Tuberculosis [Elsevier], 85, 337 (2005)

Mitra D, Saha B, Das D, Wiker HG, Das AK

(3) Crystal Structure of Low-Molecular-Weight Protein Tyrosine Phosphatase from Mycobacterium tuberculosis at 1.9 A Resolution

Journal of Bacteriology [ASM], 187, 2175 (2005)

Madhurantakam C, Rajakumara E, Mazumdar PA, Saha B, Mitra D, Wiker HG, Sakaranarayanan R and Das AK

(2) Immunodominant B-Cell Epitope in the Mce1A Mammalian Cell Entry Protein of Mycobacterium tuberculosis Cross-Reacting with Glutathione S-Transferase

Scandinavian Journal of Immunology, [Wiley] 59, 190 (2004) *Article on cover

Harboe M, Das AK, Mitra D, Ulvund G, Ahmad S, Harkness RE, Das D, Mustafaz AS and Wiker HG

(1) Predicted molecular structure of the mammalian cell entry protein Mce1A of Mycobacterium tuberculosis

Biochemical and Biophysical Research Communications [Elsevier], 302, 442 (2003)

Das AK, Mitra D, Harboe M, Nandi B, Harkness RE, Das D, and Wiker HG