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Tushir, S and Jhanwar, P and Benda, M and Horá�ková, V and Doležal, P and Tatu, U (2024) In vivo Validation of Hsp90 Trans-splicing in Giardia lamblia: Highlighting the Role of Cis-elements. In: Journal of Molecular Biology, 436 (4).
Mishra, S (2023) Emerging Trends in Cryo-EM-based Structural Studies of Neuropathological Amyloids. In: Journal of Molecular Biology, 435 (24).
Kar, D and Manna, D and Manjunath, LE and Singh, A and Som, S and Vasu, K and Eswarappa, SM (2023) Kinetics of Translating Ribosomes Determine the Efficiency of Programmed Stop Codon Readthrough. In: Journal of Molecular Biology, 435 (21).
Lahry, Kuldeep and Gopal, Aiswarya and Sahu, Amit Kumar and Marbaniang, Carmelita Nora and Shah, Riyaz Ahmad and Mehta, Avani and Varshney, Umesh (2022) An Alternative Role of RluD in the Fidelity of Translation Initiation in Escherichia coli. In: Journal of Molecular Biology, 434 (12). ISSN 00222836
Ghosh, D and Kumari, S and Raghavan, SC (2022) Depletion of RNASEH2 Activity Leads to Accumulation of DNA Double-strand Breaks and Reduced Cellular Survivability in T Cell Leukemia. In: Journal of Molecular Biology, 434 (12).
Thakur, M and Mohan, D and Singh, AK and Agarwal, A and Gopal, B and Muniyappa, K (2021) Novel insights into ATP-Stimulated Cleavage of branched DNA and RNA Substrates through Structure-Guided Studies of the Holliday Junction Resolvase RuvX. In: Journal of Molecular Biology, 433 (13).
Suresh, SN and Chakravorty, A and Giridharan, M and Garimella, L and Manjithaya, R (2020) Pharmacological Tools to Modulate Autophagy in Neurodegenerative Diseases. In: Journal of Molecular Biology, 432 (8). pp. 2822-2842.
Narayanan, N and Banerjee, A and Jain, D and Kulkarni, DS and Sharma, R and Nirwal, S and Rao, DN and Nair, DT (2020) Tetramerization at Low pH Licenses DNA Methylation Activity of M.HpyAXI in the Presence of Acid Stress. In: Journal of Molecular Biology, 432 (2). pp. 324-342.
Lahry, K and Gopal, A and Sah, S and Shah, RA and Varshney, U (2020) Metabolic Flux of N10-Formyltetrahydrofolate Plays a Critical Role in the Fidelity of Translation Initiation in Escherichia coli. In: Journal of Molecular Biology .
Rani, P and Kalladi, SM and Bansia, H and Rao, S and Jha, RK and Jain, P and Bhaduri, T and Nagaraja, V (2020) A Type IA DNA/RNA Topoisomerase with RNA Hydrolysis Activity Participates in Ribosomal RNA Processing. In: Journal of Molecular Biology .
Bhatia, S and Krishnamoorthy, G and Dhar, D and Udgaonkar, JB (2019) Observation of Continuous Contraction and a Metastable Misfolded State during the Collapse and Folding of a Small Protein. In: Journal of Molecular Biology, 431 (19). pp. 3814-3826.
Singh, KK and Bhardwaj, N and Sankhe, GD and Udaykumar, N and Singh, R and Malhotra, V and Saini, DK (2019) Acetylation of Response Regulator Proteins, TcrX and MtrA in M. tuberculosis Tunes their Phosphotransfer Ability and Modulates Two-Component Signaling Crosstalk. In: Journal of Molecular Biology, 431 (4). pp. 777-793.
Chiruvella, Kishore K and Sebastian, Robin and Sharma, Sheetal and Karande, Anjali A and Choudhary, Bibha and Raghavan, Sathees C (2012) Time-Dependent Predominance of Nonhomologous DNA End-Joining Pathways during Embryonic Development in Mice. In: Journal of Molecular Biology, 417 (3). pp. 197-211.
Naik, Abani Kanta and Raghavan, Sathees C (2012) Differential Reaction Kinetics, Cleavage Complex Formation, and Nonamer Binding Domain Dependence Dictate the Structure-Specific and Sequence-Specific Nuclease Activity of RAGs. In: Journal of Molecular Biology, 415 (3). pp. 475-488.
Dermol, Urska and Janardan, Vishnu and Tyagi, Richa and Visweswariah, Sandhya S and Podobnik, Marjetka (2011) Unique Utilization of a Phosphoprotein Phosphatase Fold by a Mammalian Phosphodiesterase Associated with WAGR Syndrome. In: Journal of Molecular Biology, 412 (3). pp. 481-494.
Seshadri, Anuradha and Singh, Sadananda N and Varshney, Umesh (2010) Recycling of the Posttermination Complexes of Mycobacterium smegmatis and Escherichia coli Ribosomes Using Heterologous Factors. In: Journal of Molecular Biology, 401 (5). pp. 854-865. (In Press)
Chetnani, Bhaskar and Kumar, Parimal and Surolia, A and Vijayan, M (2010) M.tuberculosis Pantothenate Kinase: Dual Substrate Specificity and Unusual Changes in Ligand Locations. In: Journal of Molecular Biology, 400 (2). pp. 171-185.
Thakur, Krishan Gopal and Praveena, T and Gopal, B (2010) Structural and Biochemical Bases for the Redox Sensitivity of Mycobacterium tuberculosis RslA. In: Journal of Molecular Biology, 397 (5). pp. 1199-1208.
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.
Sawarkar, Ritwick and Visweswariah, Sandhya S and Nellen, Wolfgang and Nanjundiah, Vidyanand (2009) Histone Deacetylases Regulate Multicellular Development in the Social Amoeba Dictyostelium discoideum. In: Journal of Molecular Biology, 391 (5). pp. 833-848.
Krishnan, Beena and Kulothungan, Rajendra S and Patra, Ashish K and Udgaonkar, Jayant B and Varadarajan, Raghavan (2009) SecB-Mediated Protein Export Need Not Occur via Kinetic Partitioning. In: Journal of Molecular Biology, 385 (4). pp. 1243-1256.
Sawarkar, Ritwick and Roy, Nainita and Rao, Sanjana and Raman, Swetha and Venketesh, S and Suguna, K and Tatu, Utpal (2008) Heat Shock Protein 90 Regulates Development inDictyostelium discoideum. In: Journal of Molecular Biology, 383 (1). pp. 24-35.
Singh, Nongmaithem Sadananda and Ahmad, Rais and Sangeetha, Ramachandran and Varshney, Umesh (2008) Recycling of Ribosomal Complexes Stalled at the Step of Elongation in Escherichia coli. In: Journal of Molecular Biology, 380 (3). pp. 451-464.
Roy, Siddhartha and Saraswathi, Ramachandran and Chatterji, Dipankar and Vijayan, M (2008) Structural Studies on the Second Mycobacterium smegmatis Dps: Invariant and Variable Features of Structure, Assembly and Function. In: Journal of Molecular Biology, 375 (4). pp. 948-959.
Das, Mili and Kobayashi, Masanori and Yamada, Yusuke and Sreeramulu, Sridhar and Ramakrishnan, C and Wakatsuki, Soichi and Kato, Ryuichi and Varadarajan, Raghavan (2007) Design of Disulfide-linked Thioredoxin Dimers and Multimers Through Analysis of Crystal Contacts. In: Journal of Molecular Biology, 372 (5). pp. 1278-1292.
Selvaraj, M and Roy, S and Singh, NS and Sangeetha, R and Varshney, U and Vijayan, M (2007) Structural plasticity and enzyme action: Crystal structures of Mycobacterium tuberculosis peptidyl-tRNA hydrolase. In: Journal of Molecular Biology, 372 (1). pp. 186-193.
Selvaraj, M and Roy, S and Sangeetha, R and Varshney, Umesh and Vijayan, M (2007) Structural plasticity and enzyme action: Crystal structures of Mycobacterium tuberculosis peptidyl-tRNA hydrolase. In: Journal of Molecular Biology, 372 (1). pp. 186-193.
Ghosal, Gargi and Muniyappa, K (2007) The Characterization of Saccharomyces cerevisiae Mre11/Rad50/Xrs2 Complex Reveals that Rad50 Negatively Regulates Mre11 Endonucleolytic but not the Exonucleolytic Activity. In: Journal of Molecular Biology, 372 (4). pp. 864-882.
Mondal, Kajari and Dastidar, Antara Ghosh and Singh, Guramrit and Madhusudhanan, S and Gande, Santosh Lakshmi and VijayRaghavan, K and Varadarajan, Raghavan (2007) Design and Isolation of Temperature-sensitive Mutants of Gal4 in Yeast and Drosophila. In: Journal of Molecular Biology, 370 (5). pp. 939-950.
Roy, Siddhartha and Saraswathi, Ramachandran and Gupta, Surbhi and Sekar, K and Chatterji, Dipankar and Vijayan, M (2007) Role of N and C-terminal Tails in DNA Binding and Assembly in Dps: Structural Studies of Mycobacterium smegmatis Dps Deletion Mutants. In: Journal of Molecular Biology, 370 (4). pp. 752-767.
Krishna, R and Prabu, Rajan J and Manjunath, GP and Datta, S and Chandra, NR and Muniyappa, K and Vijayan, M (2007) Snapshots of RecA Protein Involving Movement of the C-domain and Different Conformations of the DNA-binding Loops: Crystallographic and Comparative Analysis of 11 Structures of Mycobacterium smegmatis RecA. In: Journal of Molecular Biology, 367 (4). pp. 1130-1144.
Shenoy, Avinash R and Capuder, Maja and Draskovic, Petra and Lamba, Doriano and Visweswariah, Sandhya S and Podobnik, Marjetka (2007) Structural and Biochemical Analysis of the Rv0805 Cyclic Nucleotide Phosphodiesterase from Mycobacterium tuberculosis. In: Journal of Molecular Biology, 365 (1). pp. 211-225.
Tripathi, Pankaj and Anuradha, S and Ghosal, Gargi and Muniyappa, K (2006) Selective Binding of Meiosis-specific Yeast Hop1 Protein to the Holliday Junctions Distorts the DNA Structure and Its Implications for Junction Migration and Resolution. In: Journal of Molecular Biology, 364 (4). pp. 599-611.
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.
Ketkar, Amit D and Shenoy, Avinash R and Ramagopal, Udupi A and Visweswariah, Sandhya S and Suguna, Kaza (2006) A Structural Basis for the Role of Nucleotide Specifying Residues in Regulating the Oligomerization of the Rv1625c Adenylyl Cyclase from M. tuberculosis. In: Journal of Molecular Biology, 356 (4). pp. 904-916.
Ketkar, AD and Shenoy, AR and Ramagopal, UA and Visweswariah, Sandhya S and Suguna, K (2006) A structural basis for the role of nucleotide specifying residues in regulating the Rv1625c adenylyl cyclase oligomerization of the from M-tuberculosis. In: Journal of Molecular Biology , 356 (4). pp. 904-916.
Satheshkumar, PS and Lokesh, GL and Murthy, MRN and Savithri, HS (2005) The role of arginine-rich motif and beta-annulus in the assembly andstability of sesbania mosaic virus capsids. In: Journal of Molecular Biology, 353 (2). pp. 447-458.
Simanshu, Dhirendra K and Savithri, HS and Murthy, MRN (2005) Crystal structures of ADP and AMPPNP-bound Propionate kinase (TdcD)from Salmonella typhimurium: Comparison with Members of Acetate and Sugar kinase/Heat Shock Cognate 70/Actin Superfamily. In: Journal of Molecular Biology, 352 (4). pp. 876-892.
Jeyaprakash, Arockia A and Jayashree, G and Mahanta, SK and Swaminathan, CP and Sekar, K and Surolia, A and Vijayan, M (2005) Structural Basis for the Energetics of Jacalin-Sugar Interactions: Promiscuity Versus Specificity. In: Journal of Molecular Biology, 347 (1). pp. 181-188.
Saikrishnan, K and Kalapala, SK and Varshney, U and Vijayan, M (2005) X-ray structural studies of Mycobacterium tuberculosis RRF and a comparative study of RRFs of known structure. Molecular plasticity and biological implications. In: Journal of Molecular Biology, 345 (1). pp. 29-38.
Pidugu, Lakshmi Swarnamukhi and Kapoor, Mili and Surolia, Namita and Surolia, Avadhesha and Suguna, Kaza (2004) Structural Basis for the Variation in Triclosan Affinity to Enoyl Reductases. In: Journal of Molecular Biology, 343 (1). pp. 147-155.
Eaazhisai, K and Balaram, H and Balaram, P and Murthy, MRN (2004) Structures of Unliganded and Inhibitor Complexes of W168F, a Loop6 Hinge Mutant of Plasmodium falciparum Triosephosphate Isomerase: Observation of an Intermediate Position of Loop6. In: Journal of Molecular Biology, 343 (3). pp. 671-684.
Satheshkumar, PS and Lokesh, GL and Sangita, V and Saravanan, V and Vijay, CS and Murthy, MRN and Savithri, HS (2004) Role of Metal Ion-mediated Interactions in the Assembly and Stability of Sesbania Mosaic Virus T=3 and T=1 Capsids. In: Journal of Molecular Biology, 342 (3). pp. 1001-1014.
Sangita, V and Lokesh, GL and Satheshkumar, PS and Vijay, CS and Saravanan, V and Savithri, HS and Murthy, MRN (2004) T=1 Capsid Structures of Sesbania Mosaic Virus Coat Protein Mutants: Determinants of T=3 and T=1 Capsid Assembly. In: Journal of Molecular Biology, 342 (3). pp. 987-999.
Krupa, A and Preethl, G and Srinivasan, Naranaswamy (2004) Structural Modes of Stabilization of Permissive Phosphorylation Sites in Protein Kinases: Distinct Strategies in Ser/Thr and Tyr Kinases. In: Journal of Molecular Biology, 339, (5). pp. 1025-1039.
Krupa, A and Preethi, G and Srinivasan, N (2004) Structural Modes of Stabilization of Permissive Phosphorylation Sites in Protein Kinases: Distinct Strategies in Ser/Thr and Tyr Kinases. In: Journal of Molecular Biology, 339 (5). pp. 1025-1039.
Roy, Siddhartha and Gupta, Surbhi and Das, Satyabrata and Sekar, K and Chatterji, Dipankar and Vijayan, M (2004) X-ray Analysis of Mycobacterium smegmatis Dps and a Comparative Study Involving Other Dps and Dps-like Molecules. In: Journal of Molecular Biology, 339 (5). pp. 1103-1113.
Jeyaprakash, Arockia A and Srivastav, Anand and Surolia, A and Vijayan, M (2004) Structural Basis for the Carbohydrate Specificities of Artocarpin: Variation in the Length of a Loop as a Strategy for Generating Ligand Specificity. In: Journal of Molecular Biology, 338 (4). pp. 757-770.
Eaazhisai, K and Jayalakshmi, R and Gayathri, P and Anand, RP and Sumathy, K and Balaram, H and Murthy, MRN (2004) Crystal Structure of Fully Ligated Adenylosuccinate Synthetase from Plasmodium falciparum. In: Journal of Molecular Biology, 335 (5). pp. 1251-1264.
Sekar, K and Mala, Vaijayanthi S and Yogavel, M and Velmurugan, D and Poi, Ming-Jye and Vishwanath, BS and Gowda, TV and Jeyaprakash, Arokia A and Tsai, MD (2003) Crystal Structures of the Free and Anisic Acid Bound Triple Mutant of Phospholipase $A_2$. In: Journal of Molecular Biology, 333 (2). pp. 367-376.
Jeyaprakash, Arockia A and Katiyar, S and Swaminathan, CP and Sekar, K and Surolia, A and Vijayan, M (2003) Structural Basis of the Carbohydrate Specificities of Jacalin: An X-ray and Modeling Study. In: Journal of Molecular Biology, 332 (1). pp. 217-228.
Saikrishnan, K and Jeyakanthan, J and Venkatesh, J and Acharya, N and Sekar, K and Varshney, U and Vijayan, M (2003) Structure of Mycobacterium tuberculosis Singlestranded DNA-binding Protein. Variability in Quaternary Structure and Its Implications. In: Journal of Molecular Biology, 331 (2). pp. 385-393.
Babu, Madan M and Singh, Kumar S and Balaram, P (2002) A C-H center dot center dot center dot O hydrogen bond stabilized polypeptide chain reversal motif at the C terminus of helices in proteins. In: Journal of Molecular Biology, 322 (4). 871-880 .
Madan Babu, M and Kumar Singh , S and Balaram, Padmanabhan (2002) A C-H…O hydrogen bond stabilized polypeptide chain reversal motif at the C-terminus helices in proteins. In: Journal of Molecular Biology, 322 (4). 871-880 .
Babu, Madan M and Singh, Kumar S and Balaram, P (2002) A C–H...O, Hydrogen Bond Stabilized Polypeptide Chain Reversal Motif at the C Terminus of Helices in Proteins. In: Journal of Molecular Biology, 322 (4). pp. 871-880.
Acharya, Narottam and Roy, Sudipta and Varshney, Umesh (2002) Mutational Analysis of the Uracil DNA Glycosylase Inhibitor Protein and Its Interaction with Escherichia coli Uracil DNA Glycosylase. In: Journal of Molecular Biology, 321 (4). pp. 579-590.
Acharya, Narottam and Varshney, Umesh (2002) Biochemical Properties of Single-Stranded DNA-Binding Protein from Mycobacterium smegmatis, a Fast-growing Mycobacterium and Its Physical and Functional Interaction with Uracil DNA Glycosylases. In: Journal of Molecular Biology, 318 (5). pp. 1251-1264.
Pratap, JV and Jeyaprakash, Arockia A and Rani, Geetha P and Sekar, K and Surolia, A and Vijayan, M (2002) Crystal Structures of Artocarpin, a Moraceae Lectin with Mannose Specificity, and its Complex with Methyl-alpha-D-mannose: Implications to the Generation of Carbohydrate Specificity. In: Journal of Molecular Biology, 317 (2). pp. 237-247.
Olson , WK and Bansal , M and Burley , SK and Dickerson, Richard E (2001) A standard reference frame for the description of Nucleic Acid Base-Pair Geometry. In: Journal of Molecular Biology, 313 (1). 229-237 .
Gupta, Amrita and Kumar, Hari P and Dineshkumar, TK and Varshney, Umesh and Subramanya, Hosahalli S (2001) Crystal structure of Rv2118c: an AdoMet-dependent methyltransferase from Mycobacterium tuberculosis H37Rv. In: Journal of Molecular Biology, 312 (2). pp. 381-391.
Bist, Pradeep and Sistla, Srivani and Krishnamurthy, Vinita and Acharya, Asha and Chandrakala, Basavannachar and Rao, Desirazu N (2001) S-adenosyl-L-methionine is required for DNA cleavage by type III restriction enzymes. In: Journal of Molecular Biology, 310 (1). pp. 93-109.
Sri Krishna, S and Sastri, M and Savithri, HS and Murthy, MRN (2001) Structural Studies on the Empty Capsids of Physalis Mottle Virus. In: Journal of Molecular Biology, 307 (4). pp. 1035-1047.
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.
Reddy, Yeturu VR and Rao, Desirazu N (2000) Binding of EcoP15I DNA methyltransferase to DNA reveals a large structural distortion within the recognition sequence. In: Journal of Molecular Biology, 298 (4). pp. 597-610.
Kumar, Rajesh P and Eswaramoorthy, S and Vithayathil, Paul J and Viswamitra, MA (2000) The Tertiary Structure at 1.59 \AA Resolution and the Proposed Amino Acid Sequence of a Family-11 Xylanase from the Thermophilic Fungus Paecilomyces varioti Bainier. In: Journal of Molecular Biology, 295 (3). pp. 581-593.
Manoj, N and Srinivas, VR and Surolia, A and Vijayan, M and Suguna, K (2000) Carbohydrate Specificity and Salt-bridge Mediated Conformational Change in Acidic Winged Bean Agglutinin. In: Journal of Molecular Biology, 302 (5). pp. 1129-1137.
Ghosh, Anirban and Bansal, Manju (1999) C-H..O Hydrogen Bonds in Minor Groove of A-tracts in DNA Double Helices. In: Journal of Molecular Biology, 294 (5). pp. 1149-1158.
Kannan, N and Vishveshwara, S (1999) Identification of side-chain clusters in protein structures by a graph spectral method. In: Journal of Molecular Biology, 292 (2). pp. 441-464.
Sastri, Mira and Reddy D, Srihari and Krishna, Sri S and Murthy, MRN and Savithri, HS (1999) Identification of a discrete intermediate in the assembly disassembly of physalis mottle tymovirus through mutational analysis. In: Journal of Molecular Biology, 289 (4). pp. 905-918.
Sri Krishna, S and Hiremath, CN and Munshi, SK and Prahadeeswaran, D and Sastri, M and Savithri, HS and Murthy, MRN (1999) Three-dimensional Structure of Physalis Mottle Virus: Implications for the Viral Assembly. In: Journal of Molecular Biology, 289 (4). pp. 919-934.
Natesh, R and Bhanumoorthy, P and Vithayathil, PJ and Sekar, K and Ramakumar, S and Viswamitra, MA (1999) Crystal structure at $1.8 \AA$ resolution and proposed amino acid sequence of a thermostable xylanase from Thermoascus aurantiacus. In: Journal of Molecular Biology, 288 (5). pp. 999-1012.
Chandra, Nagasuma R and Ramachandraiah, Gosu and Bachhawat, Kiran and Dam, Tarun K and Surolia, A and Vijayan, M (1999) Crystal Structure of a Dimeric Mannose-specific Agglutinin from Garlic: Quaternary Association and Carbohydrate Specificity. In: Journal of Molecular Biology, 285 . pp. 1157-1168.
Gunasekaran, K and Gomathi, L and Ramakrishnan, C and Chandrasekhar, J and Balaram, P (1998) Conformational interconversions in peptide beta-turns: analysis of turns in proteins and computational estimates of barriers. In: Journal of Molecular Biology, 284 (5). pp. 1505-15016.
Prabu, Moses M and Sankaranarayanan, R and Puri, KD and Sharma, V and Surolia, A and Vijayan, M and Suguna, K (1998) Carbohydrate specificity and quaternary association in basic winged bean lectin: X-ray analysis of the lectin at 2.5 angstrom resolution. In: Journal of Molecular Biology, 276 (4). pp. 787-796.
Gunasekaran, K and Nagarajaram, HA and Ramakrishnan, C and Balaram, P (1998) Stereochemical Punctuation Marks in Protein Structures: Glycine and Proline Containing Helix Stop Signals. In: Journal of Molecular Biology, 275 (5). pp. 917-932.
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.
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