|
 | Up a level |
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.
Guhal, Sarmistha and Udupa, Shubha and Ahmed, Wareed and Nagaraja, Valakunja (2018) Rewired Downregulation of DNA Gyrase Impacts Cell Division, Expression of Topology Modulators, and Transcription in Mycobacterium smegmatis. In: JOURNAL OF MOLECULAR BIOLOGY, 430 (24). pp. 4986-5001.
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).
Mori, Giorgia and Orena, Beatrice Silvia and Franch, Clara and Mitchenall, Lesley A and Godbole, Adwait Anand and Rodrigues, Liliana and Aguilar-Perez, Clara and Zemanova, Julia and Huszar, Stanislav and Forbak, Martin and Lane, Thomas R and Sabbah, Mohamad and Deboosere, Nathalie and Frita, Rosangela and Vandeputte, Alexandre and Hoffmann, Eik and Russo, Riccardo and Connel, Nancy and Veilleux, Courtney and Jha, Rajiv K and Kumar, Pradeep and Freundlich, Joel S and Brodin, Priscille and Ainsa, Jose Antonio and Nagaraja, Valakunja and Maxwell, Anthony and Mikusova, Katarina and Pasca, Maria Rosalia and Ekins, Sean (2018) The EU approved antimalarial pyronaridine shows antitubercular activity and synergy with rifampicin, targeting RNA polymerase. In: TUBERCULOSIS, 112 . pp. 98-109.
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.
Nagamalleswari, Easa and Rao, Sandhya and Vasu, Kommireddy and Nagaraja, Valakunja (2017) Restriction endonuclease triggered bacterial apoptosis as a mechanism for long time survival. In: NUCLEIC ACIDS RESEARCH, 45 (14). pp. 8423-8434.
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 .
Ghosh, Soumitra and Indi, Shantinath S and Nagaraja, Valakunja (2013) Regulation of lipid biosynthesis, sliding motility, and biofilm formation by a membrane-anchored nucleoid-associated protein of mycobacterium tuberculosis. In: Journal of Bacteriology, 195 (8). pp. 1769-1778.
Vasu, Kommireddy and Nagaraja, Valakunja (2013) Diverse functions of restriction-modification systems in addition to cellular defense. In: Microbiology and Molecular Biology Reviews, 77 (1). pp. 53-72.
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.
China, Arnab and Mishra, Sonakshi and Tare, Priyanka and Nagaraja, Valakunja (2012) Inhibition of Mycobacterium tuberculosis RNA Polymerase by Binding of a Gre Factor Homo log to the Secondary Channel. In: Journal of Bacteriology, 194 (5). pp. 1009-1017.
Leelaram, Majety Naga and Bhat, Anuradha Gopal and Hegde, Shivanand Manjunath and Manjunath, Ramanathapuram and Nagaraja, Valakunja (2012) Inhibition of type IA topoisomerase by a monoclonal antibody through perturbation of DNA cleavage-religation equilibrium. In: FEBS Journal, 279 (1). pp. 55-65.
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.
China, Arnab and Mishra, Sonakshi and Nagaraja, Valakunja (2011) A Transcript Cleavage Factor of Mycobacterium tuberculosis Important for Its Survival. In: PLos One, 6 (7).
Swapna, Ganduri and Chakraborty, Atanu and Kumari, Vandana and Sen, Ranjan and Nagaraja, Valakunja (2011) Mutations in beta ` subunit of Escherichia coli RNA polymerase perturb the activator polymerase functional interaction required for promoter clearance. In: Molecular Microbiology, 80 (5). pp. 1169-1185.
Mitra, Anirban and Kesarwani, Anil K and Pal, Debnath and Nagaraja, Valakunja (2011) WebGeSTer DB-a transcription terminator database. In: Nucleic Acids Research, 39 (Suppl.). D129-D135.
Vasu, Kommireddy and Saravanan, Matheshwaran and Nagaraja, Valakunja (2011) Endonuclease Active Site Plasticity Allows DNA Cleavage with Diverse Alkaline Earth and Transition Metal Ions. In: ACS Chemical Biology, 6 (9). pp. 934-942.
Vasu, Kommireddy and Saravanan, Matheshwaran and Rajendra, Boggavarapu VRN and Nagaraja, Valakunja (2010) Generation of a Manganese Specific Restriction Endonuclease with Nicking Activity. In: Biochemistry, 49 (38). pp. 8425-8433.
China, Arnab and Tare, Priyanka and Nagaraja, Valakunja (2010) Comparison of promoter-specific events during transcription initiation in mycobacteria. In: Microbiology, 156 (Part 7). pp. 1942-1952.
Leelaram, Majety Naga and Suneetha, Nunna and Nagaraja, Valakunja and Manjunath, Ramanathapuram (2010) A new ELISA plate based microtiter well assay for mycobacterial topoisomerase I for the direct screening of enzyme inhibitory monoclonal antibody supernatants. In: Journal of Immunological Methods, 357 (1-2). pp. 26-32.
Malshetty, Vidyasagar and Kurthkoti, Krishna and China, Arnab and Mallick, Bratati and Yamunadevi, Subburaj and Sang, Pau Biak and Srinivasan, Narayanaswamy and Nagaraja, Valakunja and Varshney, Umesh (2010) Novel insertion and deletion mutants of RpoB that render Mycobacterium smegmatis RNA polymerase resistant to rifampicin-mediated inhibition of transcription. In: Microbiology, 156 (Part 5). pp. 1565-1573.
China, Arnab and Nagaraja, Valakunja (2010) Purification of RNA polymerase from mycobacteria for optimized promoter-polymerase interactions. In: Protein Expression and Purification, 69 (2). pp. 235-242.
Bhat, Anuradha Gopal and Leelaram, Majety Naga and Hegde, Shivanand Manjunath and Nagaraja, Valakunja (2009) Deciphering the Distinct Role for the Metal Coordination Motif in the Catalytic Activity of Mycobacterium smegmatis Topoisomerase I. In: Journal of Molecular Biology, 393 (4). pp. 788-802.
Kumar, Anil KN and Ray, Basu S and Nagaraja, Valakunja and Raichur, Ashok M (2009) Encapsulation and release of rifampicin using poly(vinyl pyrrolidone)-poly (methacrylic acid) polyelectrolyte capsules. In: Materials Science and Engineering: C, 29 (8). pp. 2508-2513.
Williams, Diana L and Slayden, Richard A and Amin, Amol and Martinez, Alejandra N and Pittman, Tana L and Mira, Alex and Mitra, Anirban and Nagaraja, Valakunja and Morrison, Norman E and Moraes, Milton and Gillis, Thomas P (2009) Implications of high level pseudogene transcription in Mycobacterium leprae. In: BMC Genomics, 10 . pp. 1-20.
Mitra, Anirban and Angamuthu, Kandavelmani and Jayashree, Hanasoge Vasudevamurthy and Nagaraja, Valakunja (2009) Occurrence, divergence and evolution of intrinsic terminators across Eubacteria. In: Genomics, 94 (2). pp. 110-116.
Leelaram, Majety Naga and Bhat, Anuradha Gopal and Suneetha, Nunna and Nagaraja, Valakunja and Manjunath, Ramanathapuram (2009) Immunological cross-reactivity of mycobacterial topoisomerase I and divergence from other bacteria. In: Tuberculosis, 89 (4). pp. 256-262.
Swapna, Ganduri and Saravanan, Matheswaran and Nagaraja, Valakunja (2009) Conformational Changes Triggered by Mg2+ Mediate Transactivator Function. In: Biochemistry, 48 (11). pp. 2347-2354.
Senthilkumar, Palaniappan and Dinakaran, Murugesan and Yogeeswari, Perumal and china, Arnab and Nagaraja, Valakunja and Sriram, Dharmarajan (2009) Antimycobacterial activities of novel fluoroquinolones. In: Biomedicine & Pharmacotherapy, 63 (1). pp. 27-35.
Senthilkumar, Palaniappan and Dinakaran, Murugesan and Yogeeswari, Perumal and Sriram, Dharmarajan and China, Arnab and Nagaraja, Valakunja (2009) Synthesis and antimycobacterial activities of novel 6-nitroquinolone-3-carboxylic acids. In: European Journal of Medicinal Chemistry, 44 (1). pp. 345-358.
Dinakaran, Murugesan and Senthilkumar, Palaniappan and Yogeeswari, Perumal and China, Arnab and Nagaraja, Valakunja and Sriram, Dharmarajan (2008) Synthesis, antimycobacterial activities and phototoxic evaluation of 5H-thiazolo[3,2-a]quinoline-4-carboxylic acid derivatives. In: Medicinal Chemistry, 4 (5). pp. 482-491.
Saravanan, Matheshwaran and Vasu, Kommireddy and Nagaraja, Valakunja (2008) Evolution of sequence specificity in a restriction endonuclease by a point mutation. In: PNAS, 105 (30). pp. 10344-10347.
Sengupta, Sugopa and Nagaraja, Valakunja (2008) Inhibition of DNA gyrase activity by Mycobacterium smegmatis MurI. In: FEMS Microbiology Letters, 279 (1). pp. 40-47.
Dinakaran, Murugesan and Senthilkumar, Palaniappan and Yogeeswari, Perumal and China, Arnab and Nagaraja, Valakunja and Sriram, Dharmarajan (2008) Novel ofloxacin derivatives: Synthesis, antimycobacterial and toxicological evaluation. In: Bioorganic & Medicinal Chemistry Letters, 18 (3). pp. 1229-1236.
Vasu, Kommireddy and Saravanan, Matheshwaran and Bujnicki, Janusz M and Nagaraja, Valakunja (2008) Structural integrity of the Beta Beta Alpha-Metal finger motif is required for DNA binding and stable protein–DNA complex formation in R.KpnI. In: Biochimica et Biophysica Acta (BBA) - Proteins & Proteomics, 1784 (2). pp. 269-275.
Senthilkumar, Palaniappan and Dinakaran, Murugesan and Banerjee, Debjani and Devakaram, Ruth Vandana and Yogeeswari, Perumal and China, Arnab and Nagaraja, Valakunja and Sriram, Dharmarajan (2008) Synthesis and antimycobacterial evaluation of newer 1-cyclopropyl-1,4-dihydro-6-fluoro-7-(substituted secondary amino)-8-methoxy-5-(sub)-4-oxoquinoline-3-carboxylic acids. In: Bioorganic & Medicinal Chemistry, 16 (5). pp. 2558-2569.
Sengupta, Sugopa and Nagaraja, Valakunja (2008) YacG from Escherichia coli is a specific endogenous inhibitor of DNA gyrase. In: Nucleic Acids Research, 36 (13). pp. 4310-4316.
Saravanan, Matheshwaran and Vasu, Kommireddy and Ghosh, Soumitra and Nagaraja, Valakunja (2007) Dual Role for $Zn^{2+}$ in Maintaining Structural Integrity and Inducing DNA Sequence Specificity in a Promiscuous Endonuclease. In: Journal of Biological Chemistry, 282 (44). pp. 32320-32326.
Sriram, Dharmarajan and Senthilkumar, Palaniappan and Dinakaran, Murugesan and Yogeeswari, Perumal and China, Arnab and Nagaraja, Valakunja (2007) Antimycobacterial Activities of Novel 1-(Cyclopropyl/tert-butyl/4-fluorophenyl)-1,4-dihydro-6-nitro-4-oxo-7-(substituted secondary amino)-1,8-naphthyridine-3-carboxylic Acid. In: Journal of Medicinal Chemistry, 50 (24). pp. 6232-6239.
Dasgupta, Suryasarathi and Navarrete, Ana-Maria and Delignat, Sandrine and Wootla, Bharath and Andre, Sebastien and Nagaraja, Valakunja and Lacroix-Desmazes, Sebastien and Kaveri, Srinivas V (2007) Immune response against therapeutic factor VIII in hemophilia A patients—A survey of probable risk factors. In: Immunology Letters, 110 (1). pp. 23-28.
Chakraborty, Atanu and Paul, Bindu Diana and Nagaraja, Valakunja (2007) Bacteriophage Mu C protein is a new member of unusual leucine zipper-HTH class of proteins. In: Protein Engineering Design and Selection, 20 (1). pp. 1-5.
Saravanan, Matheshwaran and Vasu, Kommireddy and Kanakaraj, Radhakrishnan and Rao, Desirazu N. and Nagaraja, Valakunja (2007) R.KpnI, an HNH superfamily REase, exhibits differential discrimination at non-canonical sequences in the presence of $Ca^{2+}$ and $Mg^{2+}$. In: Nucleic Acids Research, 35 (8). pp. 2777-2786.
Sengupta, Sugopa and Shah, Meera and Nagaraja, Valakunja (2006) Glutamate racemase from Mycobacterium tuberculosis inhibits DNA gyrase by affecting its DNA-binding. In: Nucleic Acids Research, 34 (19). pp. 5567-5576.
Sriram, Dharmarajan and Bal, Tanushree Ratan and Yogeeswari, Perumal and Radha, Deshpande R and Nagaraja, Valakunja (2006) Evaluation of antimycobacterial and DNA gyrase inhibition of fluoroquinolone derivatives. In: Journal of General and Applied Microbiology, 52 (4). pp. 195-200.
Lacroix-Desmazes, Sebastien and Bharath, Wootla and Dasgupta, Suryasarathi and Sandrine, Delignat and Bayry, Jagadeesh and Reinbolt, Joseph and Hoebeke, Johan and Saenko, Evgueni and Kazatchkine, Michel D and Alain, Friboulet and Christophe, Olivier and Nagaraja, Valakunja and Kaveri, Srini V (2006) Catalytic IgG from Patients with Hemophilia A Inactivate Therapeutic Factor VIII. In: Journal Of Immunology, 177 (2). pp. 1355-1363.
Bharath, Wootla and Dasgupta, Suryasarathi and Mallet, Vincent and Kazatchkine, Michel D and Nagaraja, Valakunja and Friboulet, Alain and Kaveri, Srinivas V and acroix, Desmazes Sebastien (2006) Physiopathology of catalytic antibodies:the case for factor VIII-hydrolyzing immunoglobulin G. In: Blood Coagulation & Fibrinolysis, 17 (4). pp. 229-234.
Jain, Paras and Nagaraja, Valakunja (2006) Indispensable, Functionally Complementing N and C-terminal Domains Constitute Site-specific Topoisomerase I. In: Journal of Molecular Biology, 357 (5). pp. 1409-1421.
Chakraborty, Atanu and Nagaraja, Valakunja (2006) Dual Role for Transactivator Protein C in Activation of mom Promoter of Bacteriophage Mu. In: Journal of Biological Chemistry, 281 (13). pp. 8511-8517.
Gupta, Richa and China, Arnab and Manjunatha, Ujjini H and Ponnanna, NM and Nagaraja, Valakunja (2006) A complex of DNA gyrase and RNA polymerase fosters transcription in Mycobacterium smegmatis. In: Biochemical and Biophysical Research Communications, 343 (4). pp. 1141-1145.
Jain, Paras and Nagaraja, Valakunja (2005) An atypical type II topoisomerase from Mycobacterium smegmatis with positive supercoiling activity. In: Molecular Microbiology, 58 (5). pp. 1392-1405.
Sriram, Dharmarajan and Yogeeswari, Perumal and Basha, Jafar Sadik and Radha, Deshpande R and Nagaraja, Valakunja (2005) Synthesis and antimycobacterial evaluation of various 7-substituted ciprofloxacin derivatives. In: Bioorganic & Medicinal Chemistry, 13 (20). pp. 5774-5778.
Manjunatha, Ujjini H and Maxwell, Anthony and Nagaraja, Valakunja (2005) A monoclonal antibody that inhibits mycobacterial DNA gyrase by a novel mechanism. In: Nucleic Acids Research, 33 (10). pp. 3085-3094.
Chandrashekaran, Siddamadappa and Saravanan, Matheshwaran and Radha, Deshpande R and Nagaraja, Valakunja (2004) $Ca^2^+-$mediated Site-specific DNA Cleavage and Suppression of Promiscuous Activity of KpnI Restriction Endonuclease. In: Journal of Biological Chemistry., 279 (48). pp. 49736-49740.
Saravanan, Matheshwaran and Bujnicki, Janusz M and Cymerman, Iwona A and Rao, Desirazu N and Nagaraja, Valakunja (2004) Type II restriction endonuclease R.KpnI is a member of the HNH nuclease superfamily. In: Nucleic Acids Research, 32 (20). pp. 6129-6135.
Chandrashekaran, Siddamadappa and Manjunatha, UH and Nagaraja, Valakunja (2004) KpnI restriction endonuclease and methyltransferase exhibit contrasting mode of sequence recognition. In: Nucleic Acids Research,, 32 (10). pp. 3148-3155.
Chatterji, Monalisa and Sengupta, Sugopa and Nagaraja, Valakunja (2003) Chromosomally encoded gyrase inhibitor GyrI protects Escherichia coli against DNA-damaging agents. In: Archives of Microbiology, 180 (5). pp. 339-346.
Saravanan, Matheshwaran and Elango, Kathirvel and Chandrashekaran, Siddamadappa and Anand, Narayanaswamy and Nagaraja, Valakunja (2003) A new type II restriction endonuclease, OfoI from nonheterocystous cyanobacterium Oscillatoria foreaui. In: Current Science (Bangalore), 85 (2). pp. 188-191.
Saravanan, Matheshwaran and Elango, Kathirvel and Chandrashekaran, Siddamadappa and Anand, Narayanaswamy and Nagaraja, Valakunja (2003) Catechol dioxygenase is an insensitive reporter for transcription in Mycobacterium smegmatis. In: Current Science, 85 (2). pp. 188-191.
Bheemanaik, Shivakumara and Chandrashekaran, Siddamadappa and Nagaraja, Valakunja and Rao, Desirazu N (2003) Kinetic and Catalytic Properties of Dimeric KpnI DNA Methyltransferase. In: Journal of Biological Chemistry, 278 (10). pp. 7863-7874.
Paul, Bindu D and Kanhere, Aditi and Chakraborty, Atanu and Bansal, Manju and Nagaraja, Valakunja (2003) Identification of the Domains for DNA Binding and Transactivation Function of C Protein from Bacteriophage Mu. In: Proteins: Structure, Function, and Genetics, 52 (2). pp. 272-282.
Roberts, Richard J and Belfort, Marlene and Bestor, Timothy and Bhagwat, Ashok S and Bickle, Thomas A and Bitinaite, Jurate and Blumenthal, Robert M and Degtyarev, Sergey Kh and Dryden, David TF and Dybvig, Kevin and Firmang, Keith and Gromova, Elizaveta S and Gumport, Richard I and Halford, Stephen E and Hattman, Stanley and Heitman, Joseph and Hornby, David P and Janulaitis, Arvydas and Jeltsch, Albert and Josephsen, Jytte and Kiss, Antal and Klaenhammer, Todd R and Kobayashi, Ichizo and Kong, Huimin and Kruger, Detlev H and Lacks, Sanford and Marinus, Martin G and Miyahara, Michiko and Morgan, Richard D and Murray, Noreen E and Nagaraja, Valakunja and Piekarowicz, Andrzej and Pingoud, Alfred and Raleigh, Elisabeth and Rao, Desirazu N and Reich, Norbert and Repin, Vladimir E and Selker, Eric U and Shaw, Pang-Chui and Stein, Daniel C and Stoddard, Barry L. and Szybalski, Waclaw and Trautner, Thomas A and Van Etten, James L. and Vitor, Jorge MB and Wilson, Geoffrey G and Xu, Shuang-yong (2003) A nomenclature for restriction enzymes, DNA methyltransferases, homing endonucleases and their genes. In: Nucleic Acids Research, 31 (7). pp. 1805-1812.
Unniraman, Shyam and Chatterji, Monalisa and Nagaraja, Valakunja (2002) DNA Gyrase Genes in Mycobacterium tuberculosis: a Single Operon Driven by Multiple Promoters. In: Journal of Bacteriology, 184 (19). pp. 5449-5456.
Chatterji, Monalisa and Nagaraja, Valakunja (2002) GyrI: a counter-defensive strategy against proteinaceous inhibitors of DNA gyrase. In: EMBO Reports, 3 (3). pp. 261-267.
Unniraman, Shyam and Chatterji, Monalisa and Nagaraja, Valakunja (2002) A hairpin near the 5' end stabilises the DNA gyrase mRNA in Mycobacterium smegmatis. In: Nucleic Acids Research, 30 (24). pp. 5376-5381.
Unniraman, Shyam and Nagaraja, Valakunja (2001) Axial distortion as a sensor of supercoil changes: a molecular model for the homeostatic regulation of DNA gyrase. In: Journal of Genetics, 80 (3). pp. 119-124.
Basak, Shashwati and Nagaraja, Valakunja (2001) DNA Unwinding Mechanism for the Transcriptional Activation of momP1 Promoter by the Transactivator Protein C of Bacteriophage Mu. In: The Journal of Biological Chemistry, 276 (50). pp. 46941-46945.
Unniraman, Shyam and Prakash, Ranjana and Nagaraja, Valakunja (2001) Alternate Paradigm for Intrinsic Transcription Termination in Eubacteria. In: The Journal of Biological Chemistry, 276 (45). pp. 41850-41855.
Chatterji, Monalisa and Unniraman, Shyam and Mahadevan, Sethuraman and Nagaraja, Valakunja (2001) Effect of different classes of inhibitors on DNA gyrase from Mycobacterium smegmatis. In: Journal of Antimicrobial Chemotherapy, 48 (4). pp. 479-485.
Basak, Shashwati and Olsen, Lars and Hattman, Stanley and Nagaraja, Valakunja (2001) Intrinsic DNA Distortion of the Bacteriophage Mu momP1 Promoter Is a Negative Regulator of Its Transcription. In: The Journal of Biological Chemistry, 276 (23). pp. 19836-19844.
Sikder, Devanjan and Unniraman, Shyam and Bhaduri, Tisha and Nagaraja, Valakunja (2001) Functional Cooperation Between Topoisomerase I and Single Strand DNA-binding Protein. In: Journal of Molecular Biology, 306 . pp. 669-679.
Sikder, Devanjan and Nagaraja, Valakunja (2001) A Novel Bipartite Mode of Binding of M.smegmatis Topoisomerase I to its Recognition Sequence. In: Journal of Molecular Biology, 314 . pp. 347-357.
Bhaduri, Tisha and Basak, Shashwati and Sikder, Devanjan and Nagaraja, Valakunja (2000) Inhibition of Mycobacterium smegmatis topoisomerase I by specific oligonucleotides. In: FEBS Letters, 486 (2). pp. 126-130.
Chatterji, Monalisa and Unniraman, Shyam and Maxwell, Anthony and Nagaraja, Valakunja (2000) The Additional 165 Amino Acids in the B Protein of Escherichia coli DNA Gyrase Have an Important Role in DNA Binding. In: Journal of Biological Chemistry, 275 (20). pp. 22888-22894.
Sikder, Devanjan and Nagaraja, Valakunja (2000) Determination of the recognition sequence of Mycobacterium smegmatis topoisomerase I on mycobacterial genomic sequences. In: Nucleic Acids Research, 28 (8). pp. 1830-1837.
Chandrashekaran, Siddamadappa and Babu, Padmanabhan and Nagaraja, Valakunja (1999) Characterization of DNA binding activities of over-expressed kpnI restriction endonuclease and modification methylase. In: Journal of Biosciences, 24 (3). pp. 269-277.
Chandrashekaran, Siddamadappa and Shankar, Aparna Bhavani and Babu, Padmanabhan and Paul, Bindu Diana and Nagaraja, Valakunja (1999) Identification and characterization of a type II restriction endonuclease, Stri from streptomyces thermodiastaticus. In: Current Science, 77 (2). pp. 273-276.
Janscak, Pavel and MacWilliams, Maria P and Sandmeier, Ursula and Nagaraja, Valakunja and Bickle, Thomas A (1999) DNA translocation blockage, a general mechanism of cleavage site selection by type I restriction enzymes. In: The EMBO Journal, 18 (9). pp. 2638-2647.
Chandrashekaran, Siddamadappa and Babu, Padmanabhan and Nagaraja, Valakunja (1999) Purification and Characterization of Restriction Endonuclease Basl from Bacillus species. In: Journal Biochemistry, Molecular Biolology & Biophysics, 3 . pp. 225-229.
Unniraman, Shyam and Nagaraja, Valakunja (1999) Regulation of DNA gyrase operon in Mycobacterium smegmatis: a distinct mechanism of relaxation stimulated transcription. In: Genes to Cells, 4 (12). pp. 697-706.
Bhaduri, Tisha and Baguis, Tapan Kumar and Sikder, Devanjan and Nagaraja, Valakunja (1998) DNA Topoisomerase I from Mycobacterium smegmatis - An Enzyme with Distinct Features. In: The Journal of Biological Chemistry, 273 (22). pp. 13925-13935.
Chandrashekharan, Siddamadappa and Paul, Bindu Diana and Nagaraja, Valakunja (1998) Design of a Novel Regulatory Circuit for Expression of Restriction Endonucleases. In: Biological Chemistry, 379 . pp. 579-582.
Basak, Shashwati and Nagaraja, Valakunja (1998) Transcriptional Activator C Protein-mediated Unwinding of DNA as a Possible Mechanism for mom Gene Activation. In: Journal of Molecular Biology, 284 . pp. 893-902.
Paul, Bindu D and Ramesh, Vaidyanathan and Nagaraja, Valakunja (1997) An artificial regulatory circuit for stable expression of DNA-binding proteins in a T7 expression system’. In: Gene, 190 (1). pp. 11-15.
Kirugaval, C and Hemavathy, I and Nagaraja, Valakunja (1995) DNA methylation in mycobacteria: Absence of methylation at GATC (Dam) and CCA/TGG (Dcm) sequences. In: FFMS Immunology and Medical Microbiology, 11 (4). pp. 291-296.
Balke, Virginia and Nagaraja, Valakunja and Gindlesperger, Tracy and Hattman, Stanley (1992) Functionally distinct RNA polymerise binding sites in the phage Mu mom promoter region. In: Nucleic Acids Research, 20 (11). pp. 2777-2784.
Hattman, Stanley and Newman, Laurel and Murthy, Krishna HM and Nagaraja, Valakunja (1991) Com, the phage Mu mom translational activator, is a zinc-binding protein that binds specifically to its cognate mRNA. In: Proceedings of the National Academy of Sciences USA, 88 (22). pp. 10027-10031.
Nagaraja, Valakunja and Gopinathan, KP (1980) Requirement for calcium ions in mycobacteriophage I3 DNA injection and propagation. In: Archives of Microbiology, 124 (2-3). pp. 249-254.
Nagamalleswari, Easa and Nagaraja, Valakunja (2017) Draft Genome Sequence of Klebsiella pneumoniae OK8, a Multidrug-Resistant Mouse and Human Pathogen. In: Genome Announcements, 5 (37). ISSN 2169-8287
