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Joseph, Abyson and Nagaraja, Valakunja and Natesh, Ramanathan (2019) Mycobacterial transcript cleavage factor Gre, exhibits chaperone-like activity. In: BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS, 1867 (9). pp. 757-764.
Datta, Chandreyee and Jha, Rajiv Kumar and Ganguly, Sohini and Nagaraja, Valakunja (2019) NapA (Rv0430), a Novel Nucleoid-Associated Protein that Regulates a Virulence Operon in Mycobacterium tuberculosis in a Supercoiling-Dependent Manner. In: JOURNAL OF MOLECULAR BIOLOGY, 431 (8). pp. 1576-1591.
Rani, Phoolwanti and Nagaraja, Valakunja (2019) Genome-wide mapping of Topoisomerase I activity sites reveal its role in chromosome segregation. In: NUCLEIC ACIDS RESEARCH, 47 (3). pp. 1416-1427.
Datta, Chandreyee and Jha, Rajiv Kumar and Ahmed, Wareed and Ganguly, Sohini and Ghosh, Soumitra and Nagaraja, Valakunja (2019) Physical and functional interaction between nucleoid-associated proteins HU and Lsr2 of Mycobacterium tuberculosis: altered DNA binding and gene regulation. In: MOLECULAR MICROBIOLOGY, 111 (4). pp. 981-994.
Franch, Oskar and Han, Xiao and Marcussen, Laerke Bay and Givskov, Asger and Andersen, Marie Bech and Godbole, Adwait Anand and Harmsen, Charlotte and Norskov-Lauritsen, Niels and Thomsen, Jonas and Pedersen, Finn Skou and Wang, Yilong and Shi, Donglu and Wejse, Christian and Podenphant, Lone and Nagaraja, Valakunja and Bertl, Johanna and Stougaard, Magnus and Ho, Yi-Ping and Hede, Marianne Smedegaard and Labouriau, Rodrigo and Knudsen, Birgitta Ruth (2019) A new DNA sensor system for specific and quantitative detection of mycobacteria. In: NANOSCALE, 11 (2). pp. 587-597.
Temesszentandrasi-Ambrus, Csilla and Toth, Szilard and Verma, Rinkee and Banhegyi, Peter and Szabadkai, Istvan and Baska, Ferenc and Szantai-Kis, Csaba and Hartkoorn, Ruben C and Lingerfelt, Mary A and Sarkadi, Balazs and Szakacs, Gergely and Orfi, Laszlo and Nagaraja, Valakunja and Ekins, Sean and Telbisz, Agnes (2018) Characterization of new, efficient Mycobacterium tuberculosis topoisomerase-I inhibitors and their interaction with human ABC multidrug transporters. In: PLOS ONE, 13 (9).
Joseph, Abyson and Nagaraja, Valakunja and Natesh, Ramanathan (2018) MSMEG_6292, a Mycobacterium smegmatis RNA polymerase secondary channel-binding protein: purification, crystallization and X-ray diffraction analysis. In: ACTA CRYSTALLOGRAPHICA SECTION F-STRUCTURAL BIOLOGY COMMUNICATIONS, 74 (9). pp. 543-548.
Kakade, Pallavi and Mahadik, Kasturi and Balaji, Kithiganahalli Narayanaswamy and Sanyal, Kaustuv and Nagaraja, Valakunja (2018) Two negative regulators of biofilm development exhibit functional divergence in conferring virulence potential to Candida albicans. In: FEMS YEAST RESEARCH, 19 (2).
Jha, Rajiv Kumar and Tare, Priyanka and Nagaraja, Valakunja (2018) Regulation of the gyr operon of Mycobacterium tuberculosis by overlapping promoters, DNA topology, and reiterative transcription. In: BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 501 (4). pp. 877-884.
Glaus, Florian and Dedic, Darija and Tare, Priyanka and Nagaraja, Valakunja and Rodrigues, Liliana and Antonio Ainsa, Jose and Kunze, Jens and Schneider, Gisbert and Hartkoorn, Ruben C and Cole, ST and Altmann, Karl-Heinz (2018) Total Synthesis of Ripostatin B and Structure-Activity Relationship Studies on Ripostatin Analogs. In: JOURNAL OF ORGANIC CHEMISTRY, 83 (13). pp. 7150-7172.
Bulagonda, Eswarappa Pradeep and Manivannan, Bhavani and Mahalingam, Niranjana and Lama, Manmath and Chanakya, Pachi Pulusu and Khamari, Balaram and Jadhao, Sudhir and Vasudevan, Madavan and Nagaraja, Valakunja (2018) Comparative genomic analysis of a naturally competent Elizabethkingia anophelis isolated from an eye infection. In: SCIENTIFIC REPORTS, 8 .
Nagaraja, Valakunja and Godbole, Adwait A and Henderson, Sara R and Maxwell, Anthony (2017) DNA topoisomerase I and DNA gyrase as targets for TB therapy. In: DRUG DISCOVERY TODAY, 22 (3). pp. 510-518.
Angelica Suarez, Maria and Valencia, Jhesua and Camilo Cadena, Christian and Maiti, Raktim and Datta, Chandreyee and Puerto, Gloria and Hipolito Isaza, Jose and San Juan, Homero and Nagaraja, Valakunja and David Guzman, Juan (2017) Diarylethenes Display In Vitro Anti-TB Activity and Are Efficient Hits Targeting the Mycobacterium tuberculosis HU Protein. In: MOLECULES, 22 (8).
Mishra, Saurabh and Shukla, Prashant and Bhaskar, Ashima and Anand, Kushi and Baloni, Priyanka and Jha, Rajiv Kumar and Mohan, Abhilash and Rajmani, Raju S and Nagaraja, Valakunja and Chandra, Nagasuma and Singh, Amit (2017) Efficacy of beta-lactam/beta-lactamase inhibitor combination is linked to WhiB4-mediated changes in redox physiology of Mycobacterium tuberculosis. In: ELIFE, 6 .
Ekins, Sean and Godbole, Adwait Anand and Keri, Gyorgy and Orfi, Laszlo and Pato, Janos and Bhat, Rajeshwari Subray and Verma, Rinkee and Bradley, Erin K and Nagaraja, Valakunja (2017) Machine learning and docking models for Mycobacterium tuberculosis topoisomerase I. In: TUBERCULOSIS, 103 . pp. 52-60.
Anand, Chinmay and Garg, Rajni and Ghosh, Soumitra and Nagaraja, Valakunja (2017) A Sir2 family protein Rv1151c deacetylates HU to alter its DNA binding mode in Mycobacterium tuberculosis. In: BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 493 (3). pp. 1204-1209.
Dey, Debayan and Nagaraja, Valakunja and Ramakumar, Suryanarayanarao (2017) Structural and evolutionary analyses reveal determinants of DNA binding specificities of nucleoid-associated proteins HU and IHF. In: MOLECULAR PHYLOGENETICS AND EVOLUTION, 107 . pp. 356-366.
Ahmed, Wareed and Menon, Shruti and Karthik, Pullela VDNB and Nagaraja, Valakunja (2016) Autoregulation of topoisomerase I expression by supercoiling sensitive transcription. In: NUCLEIC ACIDS RESEARCH, 44 (4). pp. 1541-1552.
Trivedi, Ujwal and Kaushik, Shubham and Kunjadia, Prashant and Saravanan, Matheshwaran and Nagaraja, Valakunja and Archana, Gattupalli and Nareshkumar, Gattupalli (2016) Functional expression and purification of Anabaena PCC 7120 XisA protein. In: PROTEIN EXPRESSION AND PURIFICATION, 118 . pp. 64-69.
Ghosh, Soumitra and Padmanabhan, Bhavna and Anand, Chinmay and Nagaraja, Valakunja (2016) Lysine acetylation of the Mycobacterium tuberculosis HU protein modulates its DNA binding and genome organization. In: MOLECULAR MICROBIOLOGY, 100 (4). pp. 577-588.
Jepsen, Morten Leth and Harmsen, Charlotte and Godbole, Adwait Anand and Nagaraja, Valakunja and Knudsen, Birgitta R and Ho, Yi-Ping (2016) Specific detection of the cleavage activity of mycobacterial enzymes using a quantum dot based DNA nanosensor. In: NANOSCALE, 8 (1). pp. 358-364.
Ghosh, Soumitra and Padmanabhan, Bhavna and Godbole, Adwait Anand and Tare, Priyanka and Ahmed, Wareed and Vasu, Kommireddy and China, Arnab and Kumar, Rupesh and Mitra, Anirban and Nagaraja, Valakunja (2016) Transcriptional regulation of topology modulators and transcription regulators of Mycobacterium tuberculosis. In: BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 475 (3). pp. 257-263.
Kakade, Pallavi and Sadhale, Parag and Sanyal, Kaustuv and Nagaraja, Valakunja (2016) ZCF32, a fungus specific Zn(II)2 Cys6 transcription factor, is a repressor of the biofilm development in the human pathogen Candida albicans. In: SCIENTIFIC REPORTS, 6 .
Kakade, Pallavi and Sadhale, Parag and Sanyal, Kaustuv and Nagaraja, Valakunja (2016) ZCF32, a fungus specific Zn(II)2 Cys6 transcription factor, is a repressor of the biofilm development in the human pathogen Candida albicans. In: SCIENTIFIC REPORTS, 6 .
Swapna, Ganduri and Kumari, Vandana and Nagaraja, Valakunja (2015) Different Modes of Transactivation of Bacteriophage Mu Late Promoters by Transcription Factor C. In: PLOS ONE, 10 (6).
Sipos, Anna and Pato, Janos and Szekely, Rita and Hartkoorn, Ruben C and Kekesi, Laszlo and Orfi, Laszlo and Szantai-Kis, Csaba and Mikusova, Katarina and Svetlikova, Zuzana and Kordulakova, Jana and Nagaraja, Valakunja and Godbole, Adwait Anand and Bush, Natassja and Collin, Frederic and Maxwell, Anthony and Cole, ST and Keri, Gyoergy (2015) Lead selection and characterization of antitubercular compounds using the Nested Chemical Library. In: TUBERCULOSIS, 95 (1). S200-S206.
Ahmed, Wareed and Menon, Shruti and Karthik, Pullela V and Nagaraja, Valakunja (2015) Reduction in DNA topoisomerase I level affects growth, phenotype and nucleoid architecture of Mycobacterium smegmatis. In: MICROBIOLOGY-SGM, 161 (2). pp. 341-353.
Godbole, Adwait Anand and Ahmed, Wareed and Bhat, Rajeshwari Subray and Bradley, Erin K and Ekins, Sean and Nagaraja, Valakunja (2015) Targeting Mycobacterium tuberculosis Topoisomerase I by Small-Molecule Inhibitors. In: ANTIMICROBIAL AGENTS AND CHEMOTHERAPY, 59 (3). pp. 1554-1562.
Kurthkoti, Krishna and Tare, Priyanka and Paitchowdhury, Rakhi and Gowthami, Vykuntham Naga and Garcia, Maria J and Colangeli, Roberto and Chatterji, Dipankar and Nagaraja, Valakunja and Rodriguez, Marcela G (2015) The mycobacterial iron-dependent regulator IdeR induces ferritin (bfrB) by alleviating Lsr2 repression. In: MOLECULAR MICROBIOLOGY, 98 (5). pp. 864-877.
Kundu, Partha P and Bhowmick, Tuhin and Swapna, Ganduri and Kumar, Pavan GV and Nagaraja, Valakunja and Narayana, Chandrabhas (2014) Allosteric Transition Induced by Mg2+ Ion in a Transactivator Monitored by SERS. In: JOURNAL OF PHYSICAL CHEMISTRY B, 118 (20). pp. 5322-5330.
Ahmed, Wareed and Menon, Shruti and Godbole, Adwait Anand and Karthik, Pullela VDNB and Nagaraja, Valakunja (2014) Conditional silencing of topoisomerase I gene of Mycobacterium tuberculosis validates its essentiality for cell survival. In: FEMS MICROBIOLOGY LETTERS, 353 (2). pp. 116-123.
Vos, Seychelle M and Lyubimov, Artem Y and Hershey, David M and Schoeffler, Allyn J and Sengupta, Sugopa and Nagaraja, Valakunja and Berger, James M (2014) Direct control of type IIA topoisomerase activity by a chromosomally encoded regulatory protein. In: GENES & DEVELOPMENT, 28 (13). pp. 1485-1497.
Ghosh, Soumitra and Mallick, Bratati and Nagaraja, Valakunja (2014) Direct regulation of topoisomerase activity by a nucleoid-associated protein. In: NUCLEIC ACIDS RESEARCH, 42 (17). pp. 11156-11165.
Gupta, Meetu and Sajid, Andaleeb and Sharma, Kirti and Ghosh, Soumitra and Arora, Gunjan and Singh, Ramandeep and Nagaraja, Valakunja and Tandon, Vibha and Singh, Yogendra (2014) HupB, a Nucleoid-Associated Protein of Mycobacterium tuberculosis, Is Modified by Serine/Threonine Protein Kinases In Vivo. In: JOURNAL OF BACTERIOLOGY, 196 (14). pp. 2646-2657.
Godbole, Adwait Anand and Ahmed, Wareed and Bhat, Rajeshwari Subray and Bradley, Erin K and Ekins, Sean and Nagaraja, Valakunja (2014) Inhibition of Mycobacterium tuberculosis topoisomerase I by m-AMSA, a eukaryotic type II topoisomerase poison. In: BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 446 (4). pp. 916-920.
Kumar, Rupesh and Madhumathi, Bhavani Shankar and Nagaraja, Valakunja (2014) Molecular Basis for the Differential Quinolone Susceptibility of Mycobacterial DNA Gyrase. In: ANTIMICROBIAL AGENTS AND CHEMOTHERAPY, 58 (4). pp. 2013-2020.
Mitra, Anirban and Misquitta, Rachel and Nagaraja, Valakunja (2014) Mycobacterium tuberculosis Rho Is an NTPase with Distinct Kinetic Properties and a Novel RNA-Binding Subdomain. In: PLOS ONE, 9 (9).
Bhowmick, Tuhin and Ghosh, Soumitra and Dixit, Karuna and Ganesan, Varsha and Ramagopal, Udupi A and Dey, Debayan and Sarma, Siddhartha P and Ramakumar, Suryanarayanarao and Nagaraja, Valakunja (2014) Targeting Mycobacterium tuberculosis nucleoid-associated protein HU with structure-based inhibitors. In: NATURE COMMUNICATIONS, 5 .
Ahmed, Wareed and Bhat, Anuradha Gopal and Leelaram, Majety Naga and Menon, Shruti and Nagaraja, Valakunja (2013) Carboxyl terminal domain basic amino acids of mycobacterial topoisomerase I bind DNA to promote strand passage. In: NUCLEIC ACIDS RESEARCH, 41 (15). pp. 7462-7471.
Tare, Priyanka and Mallick, Bratati and Nagaraja, Valakunja (2013) Co-evolution of specific amino acid in sigma 1.2 region and nucleotide base in the discriminator to act as sensors of small molecule effectors of transcription initiation in mycobacteria. In: MOLECULAR MICROBIOLOGY, 90 (3). pp. 569-583.
Marathe, Sandhya A and Kumar, Rupesh and Ajitkumar, Parthasarathi and Nagaraja, Valakunja and Chakravortty, Dipshikha (2013) Curcumin reduces the antimicrobial activity of ciprofloxacin against Salmonella Typhimurium and Salmonella Typhi. In: JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY, 68 (1). pp. 139-152.
Vasu, Kommireddy and Nagamalleswari, Easa and Zahran, Mai and Imhof, Petra and Xu, Shuang-yong and Zhu, Zhenyu and Chan, Siu-Hong and Nagaraja, Valakunja (2013) Increasing cleavage specificity and activity of restriction endonuclease KpnI. In: Nucleic Acids Research, 41 (21). pp. 9812-9824.
Tare, Priyanka and Nagaraja, Valakunja (2013) Regulation of transcription initiation in mycobacteria. In: CURRENT SCIENCE, 105 (5). pp. 632-642.
Leelaram, Majety Naga and Bhat, Anuradha Gopal and Godbole, Adwait Anand and Bhat, Rajeshwari Subray and Manjunath, Ramanathapuram and Nagaraja, Valakunja (2013) Type IA topoisomerase inhibition by clamp closure. In: FASEB JOURNAL, 27 (8). pp. 3030-3038.
Tare, Priyanka and China, Arnab and Nagaraja, Valakunja (2012) Distinct and Contrasting Transcription Initiation Patterns at Mycobacterium tuberculosis Promoters. In: PLos One, 7 (9).
Karambelkar, Shweta and Swapna, Ganduri and Nagaraja, Valakunja (2012) Silencing of toxic gene expression by Fis. In: FEBS Journal, 279 (1, SI). p. 485.
Vasu, Kommireddy and Nagamalleswari, Easa and Nagaraja, Valakunja (2012) Promiscuous restriction is a cellular defense strategy that confers fitness advantage to bacteria. In: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 109 (20). E1287-E1293.
Karambelkar, Shweta and Swapna, Ganduri and Nagaraja, Valakunja (2012) Silencing of toxic gene expression by Fis. In: NUCLEIC ACIDS RESEARCH, 40 (10). pp. 4358-4367.
Kumar, Rupesh and Riley, Jane E and Parry, Damian and Bates, Andrew D and Nagaraja, Valakunja (2012) Binding of two DNA molecules by type II topoisomerases for decatenation. In: NUCLEIC ACIDS RESEARCH, 40 (21). pp. 10904-10915.
Nagamalleswari, Easa and Vasu, Kommireddy and Nagaraja, Valakunja (2012) Ca2+ Binding to the ExDxD Motif Regulates the DNA Cleavage Specificity of a Promiscuous Endonuclease. In: BIOCHEMISTRY, 51 (44). pp. 8939-8949.
Godbole, Adwait Anand and Leelaram, Majety Naga and Bhat, Anuradha Gopal and Jain, Paras and Nagaraja, Valakunja (2012) Characterization of DNA topoisomerase I from Mycobacterium tuberculosis: DNA cleavage and religation properties and inhibition of its activity. In: ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS, 528 (2). pp. 197-203.
Mitra, Anirban and Nagaraja, Valakunja (2012) Under-representation of intrinsic terminators across bacterial genomic islands: Rho as a principal regulator of xenogenic DNA expression. In: GENE, 508 (2). pp. 221-228.
