Conformational Tuning Shapes the Balance between Functional Promiscuity and Specialization in Paralogous Plasmodium Acyl-CoA Binding Proteins
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Athi N. Naganathan | D. Fushman | Westley Pawloski | N. S. Srilatha | R. Dani | Dhruv Kumar Chaurasiya | Sonal Agarwal
[1] Athi N. Naganathan,et al. Thermodynamic architecture and conformational plasticity of GPCRs , 2022, bioRxiv.
[2] Dan S. Tawfik,et al. How gene duplication diversifies the landscape of protein oligomeric state and function , 2022, Current opinion in genetics & development.
[3] Y. Chiang,et al. Local Structural Stability of the Acyl-Coenzyme A Binding Protein by ESR Spectroscopy , 2022, Applied Magnetic Resonance.
[4] S. Ovchinnikov,et al. ColabFold: making protein folding accessible to all , 2022, Nature Methods.
[5] X. Piao,et al. Merozoite Proteins Discovered by qRT-PCR-Based Transcriptome Screening of Plasmodium falciparum , 2021, Frontiers in Cellular and Infection Microbiology.
[6] Athi N. Naganathan,et al. A hierarchy of coupling free energies underlie the thermodynamic and functional architecture of protein structures , 2021, Current research in structural biology.
[7] Catherine A. Christian-Hinman,et al. From benzodiazepines to fatty acids and beyond: revisiting the role of ACBP/DBI , 2021, Trends in Endocrinology & Metabolism.
[8] Oriol Vinyals,et al. Highly accurate protein structure prediction with AlphaFold , 2021, Nature.
[9] Scott A. Longwell,et al. Revealing enzyme functional architecture via high-throughput microfluidic enzyme kinetics , 2020, Science.
[10] Nobuhiko Tokuriki,et al. A mechanistic view of enzyme evolution , 2020, Protein science : a publication of the Protein Society.
[11] S. Copley. Evolution of new enzymes by gene duplication and divergence , 2020, The FEBS journal.
[12] Athi N. Naganathan,et al. Thermodynamics and folding landscapes of large proteins from a statistical mechanical model , 2019, Current research in structural biology.
[13] Athi N. Naganathan,et al. A binding cooperativity switch driven by synergistic structural swelling of an osmo-regulatory protein pair , 2019, Nature Communications.
[14] D. Ghosh,et al. Characterization of Lipid Binding Properties of Plasmodium falciparum Acyl-Coenzyme A Binding Proteins and Their Competitive Inhibition by Mefloquine. , 2019, ACS chemical biology.
[15] S. Ozkan,et al. Biotechnological and protein-engineering implications of ancestral protein resurrection. , 2018, Current opinion in structural biology.
[16] Shina Caroline Lynn Kamerlin,et al. Conformational dynamics and enzyme evolution , 2018, Journal of The Royal Society Interface.
[17] K. Ghosh,et al. Ancient Thioredoxins Evolved to Modern Day Stability-Function Requirement by Altering Native State Ensemble , 2018, bioRxiv.
[18] Athi N. Naganathan,et al. A General Mechanism for the Propagation of Mutational Effects in Proteins. , 2017, Biochemistry.
[19] Athi N. Naganathan,et al. Graded Structural Polymorphism in a Bacterial Thermosensor Protein. , 2017, Journal of the American Chemical Society.
[20] N. Tokuriki,et al. Conformational Tinkering Drives Evolution of a Promiscuous Activity through Indirect Mutational Effects. , 2016, Biochemistry.
[21] Athi N. Naganathan,et al. Are protein folding intermediates the evolutionary consequence of functional constraints? , 2015, The journal of physical chemistry. B.
[22] J. A. Gavira,et al. Evolution of conformational dynamics determines the conversion of a promiscuous generalist into a specialist enzyme. , 2015, Molecular biology and evolution.
[23] Rommie E. Amaro,et al. POVME 2.0: An Enhanced Tool for Determining Pocket Shape and Volume Characteristics , 2014, Journal of chemical theory and computation.
[24] Antonis Rokas,et al. Functional divergence for every paralog. , 2014, Molecular biology and evolution.
[25] Robert B Best,et al. Comparing a simple theoretical model for protein folding with all-atom molecular dynamics simulations , 2013, Proceedings of the National Academy of Sciences.
[26] J. A. Gavira,et al. Conservation of protein structure over four billion years. , 2013, Structure.
[27] Peter M. Kasson,et al. GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit , 2013, Bioinform..
[28] G. Tiana,et al. A highly compliant protein native state with a spontaneous-like mechanical unfolding pathway. , 2012, Journal of the American Chemical Society.
[29] L. Kay,et al. Studying "invisible" excited protein states in slow exchange with a major state conformation. , 2012, Journal of the American Chemical Society.
[30] F. Döring,et al. Specific regulation of low-abundance transcript variants encoding human Acyl-CoA binding protein (ACBP) isoforms , 2010, Journal of cellular and molecular medicine.
[31] Michael Costanzo,et al. Genetic interactions reveal the evolutionary trajectories of duplicate genes , 2010, Molecular systems biology.
[32] Dan S. Tawfik,et al. Protein Dynamism and Evolvability , 2009, Science.
[33] Rodrigo Lopez,et al. Clustal W and Clustal X version 2.0 , 2007, Bioinform..
[34] J. Roth,et al. Ohno's dilemma: Evolution of new genes under continuous selection , 2007, Proceedings of the National Academy of Sciences.
[35] H. R. Payne,et al. Role of Fatty Acid Binding Proteins and Long Chain Fatty Acids in Modulating Nuclear Receptors and Gene Transcription , 2007, Lipids.
[36] B. Kragelund,et al. Acyl-CoA binding proteins; structural and functional conservation over 2000 MYA , 2007, Molecular and Cellular Biochemistry.
[37] Paul Schanda,et al. SOFAST-HMQC Experiments for Recording Two-dimensional Deteronuclear Correlation Spectra of Proteins within a Few Seconds , 2005, Journal of biomolecular NMR.
[38] Timothy M Rose,et al. Evolution of the acyl-CoA binding protein (ACBP). , 2005, The Biochemical journal.
[39] Wayne Boucher,et al. The CCPN data model for NMR spectroscopy: Development of a software pipeline , 2005, Proteins.
[40] K. Kristiansen,et al. The function of acyl-CoA-binding protein (ACBP)/Diazepam binding inhibitor (DBI) , 1993, Molecular and Cellular Biochemistry.
[41] A. Wagner,et al. Asymmetric sequence divergence of duplicate genes. , 2003, Genome research.
[42] Srebrenka Robic,et al. Energetic evidence for formation of a pH-dependent hydrophobic cluster in the denatured state of Thermus thermophilus ribonuclease H. , 2003, Journal of molecular biology.
[43] Jianzhi Zhang. Evolution by gene duplication: an update , 2003 .
[44] E. Koonin,et al. Selection in the evolution of gene duplications , 2002, Genome Biology.
[45] G J Kleywegt,et al. Binding site differences revealed by crystal structures of Plasmodium falciparum and bovine acyl-CoA binding protein. , 2001, Journal of molecular biology.
[46] A. Force,et al. The probability of duplicate gene preservation by subfunctionalization. , 2000, Genetics.
[47] Karsten Kristiansen,et al. The formation of a native-like structure containing eight conserved hydrophobic residues is rate limiting in two-state protein folding of ACBP , 1999, Nature Structural Biology.
[48] A. Force,et al. Preservation of duplicate genes by complementary, degenerative mutations. , 1999, Genetics.
[49] K. Kristiansen,et al. Conserved residues and their role in the structure, function, and stability of acyl-coenzyme A binding protein. , 1999, Biochemistry.
[50] B. Kragelund,et al. Mapping the lifetimes of local opening events in a native state protein , 1998, Protein science : a publication of the Protein Society.
[51] T. Oas,et al. The structural distribution of cooperative interactions in proteins: analysis of the native state ensemble. , 1998, Proceedings of the National Academy of Sciences of the United States of America.
[52] 原田 茂治,et al. Titration Calorimetry データの取り扱い , 1997 .
[53] B. Kragelund,et al. Thermodynamics of ligand binding to acyl-coenzyme A binding protein studied by titration calorimetry. , 1996, Biochemistry.
[54] S. Grzesiek,et al. NMRPipe: A multidimensional spectral processing system based on UNIX pipes , 1995, Journal of biomolecular NMR.
[55] F M Poulsen,et al. Local perturbations by ligand binding of hydrogen deuterium exchange kinetics in a four-helix bundle protein, acyl coenzyme A binding protein (ACBP). , 1995, Journal of molecular biology.
[56] A. Hughes. The evolution of functionally novel proteins after gene duplication , 1994, Proceedings of the Royal Society of London. Series B: Biological Sciences.
[57] F M Poulsen,et al. Three-dimensional structure of the complex between acyl-coenzyme A binding protein and palmitoyl-coenzyme A. , 1993, Journal of molecular biology.
[58] D. Keire,et al. Microscopic protonation equilibria and solution conformations of coenzyme A and coenzyme A disulfides , 1992 .
[59] Dr. Susumu Ohno. Evolution by Gene Duplication , 1970, Springer Berlin Heidelberg.
[60] R. Alberty,et al. The apparent ionization constants of the adenosinephosphates and related compounds. , 1951, The Journal of biological chemistry.