Search Results - "Padhi, Siladitya"

Human aminolevulinate synthase structure reveals a eukaryotic-specific autoinhibitory loop regulating substrate binding and product release by Bailey, Henry J., Bezerra, Gustavo A., Marcero, Jason R., Padhi, Siladitya, Foster, William R., Rembeza, Elzbieta, Roy, Arijit, Bishop, David F., Desnick, Robert J., Bulusu, Gopalakrishnan, Dailey, Harry A., Yue, Wyatt W.

“…5′-aminolevulinate synthase (ALAS) catalyzes the first step in heme biosynthesis, generating 5′-aminolevulinate from glycine and succinyl-CoA. Inherited…”
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Microsecond simulation of human aquaporin 2 reveals structural determinants of water permeability and selectivity by Padhi, Siladitya, Priyakumar, U. Deva

“…Human aquaporin 2 (AQP2) from the family of aquaporins assumes great physiological importance, owing to its association with nephrogenic diabetes insipidus…”
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Urea Mimics Nucleobases by Preserving the Helical Integrity of B‑DNA Duplexes via Hydrogen Bonding and Stacking Interactions by Suresh, Gorle, Padhi, Siladitya, Patil, Indrajit, Priyakumar, U. Deva

“…Urea lesions are formed in DNA because of free radical damage of the thymine base, and their occurrence in DNA blocks DNA polymerases, which has deleterious…”
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Molecular dynamics simulations reveal the HIV-1 Vpu transmembrane protein to form stable pentamers by Padhi, Siladitya, Khan, Nabab, Jameel, Shahid, Priyakumar, U Deva

“…The human immunodeficiency virus type I (HIV-1) Vpu protein is 81 residues long and has two cytoplasmic and one transmembrane (TM) helical domains. The TM…”
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Plasmodium Topoisomerase VIB and Spo11 Constitute Functional Type IIB Topoisomerase in Malaria Parasite: Its Possible Role in Mitochondrial DNA Segregation by Singh, Priyanka, Tabassum, Wahida, Fangaria, Nupur, Dey, Sandeep, Padhi, Siladitya, Bhattacharyya, Mrinal K, Arun Kumar, Kota, Roy, Arijit, Bhattacharyya, Sunanda

“…The human malaria parasite undergoes a noncanonical cell division, namely, endoreduplication, where several rounds of nuclear, mitochondrial, and apicoplast…”
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Atomistic detailed mechanism and weak cation-conducting activity of HIV-1 Vpu revealed by free energy calculations by Padhi, Siladitya, Burri, Raghunadha Reddy, Jameel, Shahid, Priyakumar, U Deva

“…The viral protein U (Vpu) encoded by HIV-1 has been shown to assist in the detachment of virion particles from infected cells. Vpu forms cation-specific ion…”
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Elucidation of DNA Repair Function of PfBlm and Potentiation of Artemisinin Action by a Small-Molecule Inhibitor of RecQ Helicase by Suthram, Niranjan, Padhi, Siladitya, Jha, Payal, Bhattacharyya, Sunanda, Bulusu, Gopalakrishnan, Roy, Arijit, Bhattacharyya, Mrinal Kanti

“…Artemisinin (ART)-based combination therapies are recommended as first- and second-line treatments for malaria. Here, we investigated the impact of the RecQ…”
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Modeling the structure of SARS 3a transmembrane protein using a minimum unfavorable contact approach by RAMAKRISHNA, S, PADHI, SILADITYA, PRIYAKUMAR, U DEVA

“…3a is an accessory protein from SARS coronavirus that is known to play a significant role in the proliferation of the virus by forming tetrameric ion channels…”
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Ion Selectivity and Permeation Mechanism in a Cyclodextrin-Based Channel by Musunuru, Pratyusha, Padhi, Siladitya, Priyakumar, U. Deva

“…Synthetic ion channels are a promising technology in the medical and materials sciences because of their ability to conduct ions. Channels based on…”
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Selectivity and transport in aquaporins from molecular simulation studies by Padhi, Siladitya, Priyakumar, U Deva

“…The transport of water through aquaporins is a dynamic process that involves rapid movement of a chain of water molecules through the pore of the aquaporin…”
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TPP riboswitch aptamer: Role of Mg2+ ions, ligand unbinding, and allostery by Padhi, Siladitya, Pradhan, Meenakshi, Bung, Navneet, Roy, Arijit, Bulusu, Gopalakrishnan

“…Riboswitches are non-coding RNAs that regulate gene expression in response to the binding of metabolites. Their abundance in bacteria makes them ideal drug…”
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De novo design of anti-tuberculosis agents using a structure-based deep learning method by Krishnan, Sowmya Ramaswamy, Bung, Navneet, Padhi, Siladitya, Bulusu, Gopalakrishnan, Misra, Parimal, Pal, Manojit, Oruganti, Srinivas, Srinivasan, Rajgopal, Roy, Arijit

“…Mycobacterium tuberculosis (Mtb) is a pathogen of major concern due to its ability to withstand both first- and second-line antibiotics, leading to drug…”
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Cooperation of Hydrophobic Gating, Knock-on Effect, and Ion Binding Determines Ion Selectivity in the p7 Channel by Padhi, Siladitya, Priyakumar, U. Deva

“…Ion channels selectively allow certain ions to pass through at much higher rates than others, and thereby modulate ionic concentrations across cell membranes…”
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Urea–Aromatic Stacking and Concerted Urea Transport: Conserved Mechanisms in Urea Transporters Revealed by Molecular Dynamics by Padhi, Siladitya, Priyakumar, U. Deva

“…Urea transporters are membrane proteins that selectively allow urea molecules to pass through. It is not clear how these transporters allow rapid conduction of…”
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Ion Hydration Dynamics in Conjunction with a Hydrophobic Gating Mechanism Regulates Ion Permeation in p7 Viroporin from Hepatitis C Virus by Padhi, Siladitya, Priyakumar, U. Deva

“…The selectivity of the p7 channel from hepatitis C virus (HCV) toward K+ over Ca2+ has made the channel an intriguing system for investigating ion permeation…”
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Prediction of the structures of helical membrane proteins based on a minimum unfavorable contacts approach by Padhi, Siladitya, Ramakrishna, Siddabattula, Priyakumar, U. Deva

“…An understanding of structure–function relationships of membrane proteins continues to be a challenging problem, owing to the difficulty in obtaining their…”
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TPP riboswitch aptamer: Role of Mg 2+ ions, ligand unbinding, and allostery by Padhi, Siladitya, Pradhan, Meenakshi, Bung, Navneet, Roy, Arijit, Bulusu, Gopalakrishnan

“…Riboswitches are non-coding RNAs that regulate gene expression in response to the binding of metabolites. Their abundance in bacteria makes them ideal drug…”
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Temperature Dependence of the Stability of Ion Pair Interactions, and its Implications on the Thermostability of Proteins from Thermophiles by BIKKINA, SWETHA, BHATI, AGASTYA P, PADHI, SILADITYA, PRIYAKUMAR, U DEVA

“…An understanding of the determinants of the thermal stability of thermostable proteins is expected to enable design of enzymes that can be employed in…”
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pH-mediated gating and formate transport mechanism in the Escherichia coli formate channel by Padhi, Siladitya, Reddy, Lekkala Karthik, Priyakumar, U. Deva

“…Formate channels play a crucial role in the metabolism of several different kinds of bacteria by bringing about uptake and export of formate ions. The current…”
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Cholic Acid-Derived Amphiphile which Combats Gram-Positive Bacteria-Mediated Infections via Disintegration of Lipid Clusters by Kumar, Sandeep, Thakur, Jyoti, Yadav, Kavita, Mitra, Madhurima, Pal, Sanjay, Ray, Arjun, Gupta, Siddhi, Medatwal, Nihal, Gupta, Ragini, Mishra, Deepakkumar, Rani, Parul, Padhi, Siladitya, Sharma, Priyanka, Kapil, Arti, Srivastava, Aasheesh, Priyakumar, U. Deva, Dasgupta, Ujjaini, Thukral, Lipi, Bajaj, Avinash

“…Inappropriate and uncontrolled use of antibiotics results in the emergence of antibiotic resistance, thereby threatening the present clinical regimens to treat…”
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