Article

Ghosh, D.K. and Ranjan, Akash (2020) The metastable states of proteins. Protein Science, 29 (7). pp. 1559-1568. ISSN 0961-8368

Ghosh, D.K. and Kumar, Abhishek and Ranjan, Akash (2020) T54R mutation destabilizes the dimer of superoxide dismutase 1T54R by inducing steric clashes at the dimer interface. RSC Advances, 10 (18). pp. 10776-10788. ISSN 2046-2069

Kumar, Abhishek and Ghosh, D.K. and Ranjan, Akash (2020) Mefloquine binding to human acyl-CoA binding protein leads to redox stress-mediated apoptotic death of human neuroblastoma cells. NeuroToxicology, 77. pp. 169-180. ISSN 0161-813X

Gupta, S.K. and Rajendra Kumar, A. and Yousuf, S. and Gangi Reddy, C. and Ranjan, Akash (2020) Ectopic Expression of Rv0023 Mediates Isoniazid/Ethionamide Tolerance via Altering NADH/NAD+ Levels in Mycobacterium smegmatis. Frontiers in Microbiology, 11. p. 3. ISSN 1664-302X

Ghosh, D.K. and Shrikondawar, A.N. and Ranjan, Akash (2020) Local structural unfolding at the edge-strands of beta sheets is the molecular basis for instability and aggregation of G85R and G93A mutants of Superoxide dismutase 1. Journal of Biomolecular Structure and Dynamics, 38 (3). pp. 647-653. ISSN 0739-1102

Ghosh, D.K. and Ranjan, Akash (2019) An IRES-dependent translation of HYPK mRNA generates a truncated isoform of the protein that lacks the nuclear localization and functional ability. RNA Biology, 16 (11). pp. 1604-1621. ISSN 1547-6286

Kumar, Abhishek and Ghosh, D.K. and Ali, J. and Ranjan, Akash (2019) Characterization of lipid binding properties of Plasmodium falciparum acyl-CoA binding proteins and their competitive inhibition by mefloquine. ACS Chemical Biology, 14 (5). pp. 901-915. ISSN 1554-8929

Ghosh, D.K. and Kumar, Abhishek and Ranjan, Akash (2018) Metastable states of HYPK-UBA domain's seeds drive the dynamics of its own aggregation. Biochimica et Biophysica Acta (BBA) - General Subjects, 1862 (12). pp. 2846-2861. ISSN 0304-4165

Yousuf, S. and Rajendra Kumar, A. and Roy, Ajit and Gupta, S.K. and Misra, R. and Ranjan, Akash (2018) Mce2R/Rv0586 of Mycobacterium tuberculosis is the functional homologue of FadR E. coli. Microbiology, 164 (9). pp. 1133-1145. ISSN 1350-0872

Ghosh, D.K. and Roy, Ajit and Ranjan, Akash (2018) The ATPase VCP/p97 functions as a disaggregase against toxic Huntingtin-exon1 aggregates. FEBS Letters, 592 (16). pp. 2680-2692. ISSN 0014-5793

Ghosh, D.K. and Roy, Ajit and Ranjan, Akash (2018) Disordered nanostructure in Huntingtin interacting protein K acts as stabilizing switch to prevent protein aggregation. Biochemistry, 57 (13). pp. 2009-2023. ISSN 0006-2960

Rajendra Kumar, A. and Yousuf, S. and Gupta, S.K. and Ranjan, Akash (2018) An IclR like protein from mycobacteria regulates leuCD operon and induces dormancy-like growth arrest in Mycobacterium smegmatis. Tuberculosis, 108. pp. 83-92. ISSN 1472-9792

Ghosh, D.K. and Roy, Ajit and Ranjan, Akash (2018) Aggregation-prone regions in HYPK help it to form sequestration complex for toxic protein aggregates. Journal of Molecular Biology, 430 (7). pp. 963-986. ISSN 0022-2836

Roy, Ajit and Reddi, R.K. and Sawhney, Bhavik and Ghosh, D.K. and Anthony, A. and Ranjan, Akash (2016) Expression, Functional Characterization and X-ray Analysis of HosA, A Member of MarR Family of Transcription Regulator from Uropathogenic Escherichia coli. The Protein Journal, 35 (4). pp. 269-282. ISSN 1572-3887

Roy, Ajit and Ranjan, Akash (2016) HosA, a MarR Family Transcriptional Regulator, Represses Nonoxidative Hydroxyarylic Acid Decarboxylase Operon and Is Modulated by 4-Hydroxybenzoic Acid. Biochemistry, 55 (7). pp. 1120-1134. ISSN 0006-2960

Sawhney, B. and Chopra, K. and Mishra, R. and Ranjan, Akash (2015) Identification of Plasmodium falciparum apicoplast-targeted tRNA-guanine transglycosylase and its potential inhibitors using comparative genomics, molecular modelling, docking and simulation studies. Journal of Biomolecular Structure and Dynamics, 33 (11). pp. 2404-2420. ISSN 0739-1102

Yousuf, S. and Rajendra, A, and Vindal, V. and Ranjan, Akash (2015) Rv0494 is a starvation-inducible, auto-regulatory FadR-like regulator from Mycobacterium tuberculosis. Microbiology, 161 (3). pp. 463-476. ISSN 1350-0872

Pandey, S.D. and Choudhury, Mitali and Yousuf, S. and Wheeler, P.R. and Gordon, S.V. and Ranjan, Akash and Sritharan, Manjula (2014) Iron-Regulated Protein HupB of Mycobacterium tuberculosis Positively Regulates Siderophore Biosynthesis and Is Essential for Growth in Macrophages. Journal of Bacteriology, 196 (10). pp. 1853-1865. ISSN 0021-9193

Muley, V.Y. and Ranjan, Akash (2013) Evaluation of Physical and Functional Protein-Protein Interaction Prediction Methods for Detecting Biological Pathways. PLoS ONE, 8 (1). e54325. ISSN 1932-6203

Ali, J. and Shashi Rekha, T. and Ranjan, Akash (2012) The parasite specific substitution matrices improve the annotation of apicomplexan proteins. BMC genomics, 13 (Suppl ). S19. ISSN 1471-2164

Muley, V.Y. and Ranjan, Akash (2012) Effect of Reference Genome Selection on the Performance of Computational Methods for Genome-Wide Protein-Protein Interaction Prediction. PLoS ONE, 7 (7). e42057. ISSN 1932-6203

Ali, J. and Uma Devi, P. and Ranjan, Akash (2011) ApicoAlign: an alignment and sequence search tool for apicomplexan proteins. BMC Genomics, 12 (Suppl ). S6. ISSN 1471-2164

Paila, U. and Kondam, R. and Ranjan, Akash (2008) Genome bias influences amino acid choices: analysis of amino acid substitution and re-compilation of substitution matrices exclusive to an AT-biased genome. Nucleic Acids Research, 36 (21). pp. 6664-6675. ISSN 0305-1048

Rajesh, V. and Singamsetti, V.K. and Vidya, S. and Gowrishankar, M. and Elamaran, M. and Tripathi, J. and Radhika, N.B. and Kochar, D. and Ranjan, Akash and Roy, S.K. and Das, A. (2008) Plasmodium falciparum: Genetic polymorphism in apical membrane antigen-1 gene from Indian isolates. Experimental Parasitology, 119 (1). pp. 144-151. ISSN 0014-4894

Vindal, V. and Ashwantha Kumar, E. and Ranjan, Akash (2008) Identification of operator sites within the upstream region of the putative mce2R gene from mycobacteria. FEBS Letters, 582 (7). pp. 1117-1122. ISSN 0014-5793

Hussain, M.A. and Naveed, S.A. and Sechi, L.A. and Ranjan, Sarita and Alvi, A. and Ahmed, I. and Ranjan, Akash and Mukhopadhyay, Sangita and Ahmed, N. (2008) Isocitrate Dehydrogenase of Helicobacter pylori Potentially Induces Humoral Immune Response in Subjects with Peptic Ulcer Disease and Gastritis. PLoS ONE, 3 (1). e1481. ISSN 1932-6203

Akhter, T. and Yellaboina, S. and Farhana, A. and Ranjan, Akash and Ahmed, N. and Hasnain, S.E. (2008) Genome scale portrait of cAMP-receptor protein (CRP) regulons in mycobacteria points to their role in pathogenesis. Gene, 407 (1-2). pp. 148-158. ISSN 1932-6203

Saxena, V. and Garg, S. and Ranjan, Sarita and Kochar, D. and Ranjan, Akash and Das, A. (2007) Analysis of elongation factor Tu (tuf A) of apicoplast from Indian Plasmodium vivax isolates. Infection, Genetics and Evolution, 7 (5). pp. 618-626. ISSN 1567-1348

Vindal, V. and Suma, K. and Ranjan, Akash (2007) GntR family of regulators in Mycobacterium smegmatis: a sequence and structure based characterization. BMC Genomics, 8 (1). p. 289. ISSN 1471-2164

Ahmed, N. and Majeed, A.A. and Ahmed, I. and Hussain, M.A. and Alvi, A. and Devi, S.M. and Rizwan, M. and Ranjan, Akash and Sechi, L.A. and Mégraud, F. (2007) genoBASE pylori: A genotype search tool and database of the human gastric pathogen Helicobacter pylori. Infection, Genetics and Evolution, 7 (4). pp. 463-468. ISSN 1567-1348

Vidyasagar, M. and Hasnain, S.E. and Mande, S.C. and Nagarajaram, H.A. and Ranjan, Akash and Acharya, M.S. and Anwaruddin, M. and Arun, S.K. and Gyanrajkumar, and Kumar, D. and Priya, S. and Ranjan, S. and Reddi, B.R. and Seshadri, J. and Sravan Kumar, P. and Swaminathan, S. and Uma Devi, P. and Vindal, V. and Vijaykrishnan, S. (2007) BioSuite: A comprehensive bioinformatics software package (A unique industry-academia collaboration). Current Science, 92 (1). pp. 29-38. ISSN 0011-3891

Vindal, V. and Ranjan, Sarita and Ranjan, Akash (2007) In silico analysis and characterization of GntR family of regulators from Mycobacterium tuberculosis. Tuberculosis, 87 (3). pp. 242-247. ISSN 14729792

Ranjan, Sarita and Kumar, G.R. and Ranjan, Akash (2006) MycoperonDB: a database of computationally identified operons and transcriptional units in Mycobacteria. BMC Bioinformatics, 7 (Suppl ). S9. ISSN 14712105

Ranjan, Sarita and Seshadri, J. and Vindal, V. and Yellaboina, S. and Ranjan, Akash (2006) iCR: a web tool to identify conserved targets of a regulatory protein across the multiple related prokaryotic species. Nucleic Acids Research, 34 (Web Se). W584-W587. ISSN 0305-1048

Yellaboina, S. and Ranjan, Sarita and Vindal, V. and Ranjan, Akash (2006) Comparative analysis of iron regulated genes in mycobacteria. FEBS Letters, 580 (11). pp. 2567-2576. ISSN 0014-5793

Ranjan, Sarita and Yellaboina, S. and Ranjan, Akash (2006) IdeR in Mycobacteria: From Target Recognition to Physiological Function. Critical Reviews in Microbiology, 32 (2). pp. 69-75. ISSN 1040-841X

Vijay Kumar, S. and Ranjan, Sarita and Saxena, V. and Rajesh, V. and Roy, S.K. and Kochar, D. and Ranjan, Akash and Das, A. (2005) Plasmodium falciparum: Genetic diversity of C-terminal region of MSP-1 in isolates from Indian sub-continent. Experimental Parasitology, 110 (4). pp. 384-388. ISSN 0014-4894

Prakash, P. and Yellaboina, S. and Ranjan, Akash and Hasnain, S.E. (2005) Computational prediction and experimental verification of novel IdeR binding sites in the upstream sequences of Mycobacterium tuberculosis open reading frames. Bioinformatics, 21 (10). pp. 2161-2166. ISSN 1367-4803

Yellaboina, S. and Ranjan, Sarita and Chakhaiyar, P. and Hasnain, S.E. and Ranjan, Akash (2004) Prediction of DtxR regulon: Identification of binding sites and operons controlled by Diphtheria toxin repressor in Corynebacterium diphtheriae. BMC Microbiology, 4 (1). p. 38. ISSN 1471-2180

Yellaboina, S. and Seshadri, J. and Kumar, M.S. and Ranjan, Akash (2004) PredictRegulon: a web server for the prediction of the regulatory protein binding sites and operons in prokaryote genomes. Nucleic Acids Research, 32 (Web Se). W318-W320. ISSN 1362-4962