Search Results - "Dey, Sucharita"

PDB-wide identification of biological assemblies from conserved quaternary structure geometry by Dey, Sucharita, Ritchie, David W, Levy, Emmanuel D

“…Monomeric and homo-oligomeric protein quaternary structure states are predicted on a PDB-wide scale using a method that approaches the accuracy of manual…”
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Interaction of virstatin with human serum albumin: spectroscopic analysis and molecular modeling by Chatterjee, Tanaya, Pal, Aritrika, Dey, Sucharita, Chatterjee, Barun K, Chakrabarti, Pinak

“…Virstatin is a small molecule that inhibits Vibrio cholerae virulence regulation, the causative agent for cholera. Here we report the interaction of virstatin…”
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Selective Detection of Pyrophosphate Anions in Aqueous Medium Using Aggregation of Perylene Diimide as a Fluorescent Probe by Dey, Sucharita, Sukul, Pradip Kr

“…A water-soluble perylene diimide, aspartic acid-functionalized perylene diimide (APDI), has shown significant sequential “turn-off” and “turn-on” responses…”
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The Subunit Interfaces of Weakly Associated Homodimeric Proteins by Dey, Sucharita, Pal, Arumay, Chakrabarti, Pinak, Janin, Joël

“…We analyzed subunit interfaces in 315 homodimers with an X-ray structure in the Protein Data Bank, validated by checking the literature for data that indicate…”
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ProDFace: A web-tool for the dissection of protein-DNA interfaces by Pal, Arumay, Chakrabarti, Pinak, Dey, Sucharita

“…Protein-DNA interactions play a crucial role in gene expression and regulation. Identifying the DNA binding surface of proteins has long been a challenge–in…”
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Characterization and prediction of the binding site in DNA-binding proteins: improvement of accuracy by combining residue composition, evolutionary conservation and structural parameters by Dey, Sucharita, Pal, Arumay, Guharoy, Mainak, Sonavane, Shrihari, Chakrabarti, Pinak

“…We present a set of four parameters that in combination can predict DNA-binding residues on protein structures to a high degree of accuracy. These are the…”
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QSalignWeb: A Server to Predict and Analyze Protein Quaternary Structure by Dey, Sucharita, Prilusky, Jaime, Levy, Emmanuel D

“…The identification of physiologically relevant quaternary structures (QSs) in crystal lattices is challenging. To predict the physiological relevance of a…”
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A survey of hemoglobin quaternary structures by Dey, Sucharita, Chakrabarti, Pinak, Janin, Joël

“…We perform an analysis of the quaternary structure and dimer/dimer interface in the crystal structures of 165 human hemoglobin tetramers; 112 are in the T, 17…”
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The role of intrinsically unstructured proteins in neurodegenerative diseases by Raychaudhuri, Swasti, Dey, Sucharita, Bhattacharyya, Nitai P, Mukhopadhyay, Debashis

“…The number and importance of intrinsically disordered proteins (IUP), known to be involved in various human disorders, are growing rapidly. To test for the…”
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Geometric description of self-interaction potential in symmetric protein complexes by Empereur-Mot, Charly, Garcia-Seisdedos, Hector, Elad, Nadav, Dey, Sucharita, Levy, Emmanuel D.

“…Proteins can self-associate with copies of themselves to form symmetric complexes called homomers. Homomers are widespread in all kingdoms of life and allow…”
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PDB-wide identification of physiological hetero-oligomeric assemblies based on conserved quaternary structure geometry by Dey, Sucharita, Levy, Emmanuel D.

“…An accurate understanding of biomolecular mechanisms and diseases requires information on protein quaternary structure (QS). A critical challenge in inferring…”
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On the abundance and importance of AXXXA sequence motifs in globular proteins and their involvement in CβCβ interaction by Tajane, Surbhi Vilas, Thakur, Abhilasha, Acharya, Srijita, Chakrabarti, Pinak, Dey, Sucharita

“…[Display omitted] •Obligate homodimer (OD) interfaces prefer having AXXXA motifs compared to that of heterodimers, and transient homodimers.•Helical segments…”
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Self-assembled nanomaterials of naphthalene monoimide in aqueous medium for multimodal detection of picric acid by Dey, Sucharita, Saha, Ankita, Kumar, Prince, Kar, Chirantan, Chakraborty, Sandipan, Sukul, Pradip K.

“…[Display omitted] •Amino acid substituted water soluble naphthalimide was synthesized and studied the photophysical properties and aggregation induced emission…”
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Loss of tumor suppressor KDM6A amplifies PRC2-regulated transcriptional repression in bladder cancer and can be targeted through inhibition of EZH2 by Ler, Lian Dee, Ghosh, Sujoy, Chai, Xiaoran, Thike, Aye Aye, Heng, Hong Lee, Siew, Ee Yan, Dey, Sucharita, Koh, Liang Kai, Lim, Jing Quan, Lim, Weng Khong, Myint, Swe Swe, Loh, Jia Liang, Ong, Pauline, Sam, Xin Xiu, Huang, Dachuan, Lim, Tony, Tan, Puay Hoon, Nagarajan, Sanjanaa, Cheng, Christopher Wai Sam, Ho, Henry, Ng, Lay Guat, Yuen, John, Lin, Po-Hung, Chuang, Cheng-Keng, Chang, Ying-Hsu, Weng, Wen-Hui, Rozen, Steven G, Tan, Patrick, Creasy, Caretha L, Pang, See-Tong, McCabe, Michael T, Poon, Song Ling, Teh, Bin Tean

“…Trithorax-like group complex containing KDM6A acts antagonistically to Polycomb-repressive complex 2 (PRC2) containing EZH2 in maintaining the dynamics of the…”
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Correction: AP2/ERF Transcription Factor Orthologs of the Desert Tree Prosopis cineraria Show Higher Copy Number and DNA‑Binding Affinity than Drought‑Sensitive Species by Dhiman, Vedikaa, Marik, Debankona, Amrita, Shekhawat, Rajveer Singh, Swain, Asish Kumar, Dey, Arpan, Yadav, Pankaj, Pal, Arumay, Dey, Sucharita, Sadhukhan, Ayan

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AP2/ERF Transcription Factor Orthologs of the Desert Tree Prosopis cineraria Show Higher Copy Number and DNA-Binding Affinity than Drought-Sensitive Species by Dhiman, Vedikaa, Marik, Debankona, Amrita, Shekhawat, Rajveer Singh, Swain, Asish Kumar, Dey, Arpan, Yadav, Pankaj, Pal, Arumay, Dey, Sucharita, Sadhukhan, Ayan

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PDBe-KB: a community-driven resource for structural and functional annotations by Varadi, Mihaly, Berrisford, John, Deshpande, Mandar, Nair, Sreenath S, Gutmanas, Aleksandras, Armstrong, David, Pravda, Lukas, Al-Lazikani, Bissan, Anyango, Stephen, Barton, Geoffrey J, Berka, Karel, Blundell, Tom, Borkakoti, Neera, Dana, Jose, Das, Sayoni, Dey, Sucharita, Micco, Patrizio Di, Fraternali, Franca, Gibson, Toby, Helmer-Citterich, Manuela, Hoksza, David, Huang, Liang-Chin, Jain, Rishabh, Jubb, Harry, Kannas, Christos, Kannan, Natarajan, Koca, Jaroslav, Krivak, Radoslav, Kumar, Manjeet, Levy, Emmanuel D, Madeira, F, Madhusudhan, M S, Martell, Henry J, MacGowan, Stuart, McGreig, Jake E, Mir, Saqib, Mukhopadhyay, Abhik, Parca, Luca, Paysan-Lafosse, Typhaine, Radusky, Leandro, Ribeiro, Antonio, Serrano, Luis, Sillitoe, Ian, Singh, Gulzar, Skoda, Petr, Svobodova, Radka, Tyzack, Jonathan, Valencia, Alfonso, Fernandez, Eloy Villasclaras, Vranken, Wim, Wass, Mark, Thornton, Janet, Sternberg, Michael, Orengo, Christine, Velankar, Sameer

“…Abstract The Protein Data Bank in Europe-Knowledge Base (PDBe-KB, https://pdbe-kb.org) is a community-driven, collaborative resource for literature-derived,…”
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Inferring and Using Protein Quaternary Structure Information from Crystallographic Data by Dey, Sucharita, Levy, Emmanuel D

“…A precise knowledge of the quaternary structure of proteins is essential to illuminate both their function and their evolution. The major part of our knowledge…”
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Genomic landscapes of breast fibroepithelial tumors by Tan, Jing, Ong, Choon Kiat, Lim, Weng Khong, Ng, Cedric Chuan Young, Thike, Aye Aye, Ng, Ley Moy, Rajasegaran, Vikneswari, Myint, Swe Swe, Nagarajan, Sanjanaa, Thangaraju, Saranya, Dey, Sucharita, Nasir, Nur Diyana Md, Wijaya, Giovani Claresta, Lim, Jing Quan, Huang, Dachuan, Li, Zhimei, Wong, Bernice Huimin, Chan, Jason Yong Sheng, McPherson, John R, Cutcutache, Ioana, Poore, Gregory, Tay, Su Ting, Tan, Wai Jin, Putti, Thomas Choudary, Ahmad, Buhari Shaik, Iau, Philip, Chan, Ching Wan, Tang, Anthony P H, Yong, Wei Sean, Madhukumar, Preetha, Ho, Gay Hui, Tan, Veronique Kiak Mien, Wong, Chow Yin, Hartman, Mikael, Ong, Kong Wee, Tan, Benita K T, Rozen, Steven G, Tan, Patrick, Tan, Puay Hoon, Teh, Bin Tean

“…Bin Tean Teh and colleagues report the genomic characterization of 100 breast fibroepithelial tumors, including benign fibroadenomas and benign, borderline and…”
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Water and side-chain embedded π-turns by Dasgupta, Bhaskar, Dey, Sucharita, Chakrabarti, Pinak

“…ABSTRACT Elucidating protein function from its structure is central to the understanding of cellular mechanisms. This involves deciphering the dependence of…”
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