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Ponnuthurai N. Suganthan | Ramanathan Sowdhamini | Khader Shameer | Ganesan Pugalenthi | Govindaraju Archunan | Krishna Kumar Kandaswamy | P. Suganthan | K. Kandaswamy | G. Pugalenthi | R. Sowdhamini | G. Archunan | K. Shameer
[1] Gerry McDermott,et al. The structure of Escherichia coli cytosine deaminase. , 2002, Journal of molecular biology.
[2] Haruki Nakamura,et al. The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data , 2006, Nucleic Acids Res..
[3] P. Suganthan,et al. Identification of catalytic residues from protein structure using support vector machine with sequence and structural features. , 2008, Biochemical and biophysical research communications.
[4] Adam Godzik,et al. Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences , 2006, Bioinform..
[5] Graeme Milligan,et al. Domain Swapping in the Human Histamine H1 Receptor , 2004, Journal of Pharmacology and Experimental Therapeutics.
[6] D. Mengin-Lecreulx,et al. The Crystal Structures of Apo and Complexed Saccharomyces cerevisiae GNA1 Shed Light on the Catalytic Mechanism of an Amino-sugar N-Acetyltransferase* , 2001, The Journal of Biological Chemistry.
[7] D. Eisenberg,et al. Domain swapping: entangling alliances between proteins. , 1994, Proceedings of the National Academy of Sciences of the United States of America.
[8] S. Moro,et al. Elucidation of the ribonuclease A aggregation process mediated by 3D domain swapping: a computational approach reveals possible new multimeric structures. , 2008, Biopolymers.
[9] K. Chou,et al. Using Functional Domain Composition and Support Vector Machines for Prediction of Protein Subcellular Location* , 2002, The Journal of Biological Chemistry.
[10] W. Delano. The PyMOL Molecular Graphics System , 2002 .
[11] David Eisenberg,et al. Refined structure of dimeric diphtheria toxin at 2.0 Å resolution , 1994, Protein science : a publication of the Protein Society.
[12] L. Wyns,et al. Trimeric domain-swapped barnase. , 1999, Proceedings of the National Academy of Sciences of the United States of America.
[13] H. Bernstein. Recent changes to RasMol, recombining the variants. , 2000, Trends in biochemical sciences.
[14] D Eisenberg,et al. The crystal structure of a 3D domain-swapped dimer of RNase A at a 2.1-A resolution. , 1998, Proceedings of the National Academy of Sciences of the United States of America.
[15] Angela M Gronenborn,et al. Protein acrobatics in pairs--dimerization via domain swapping. , 2009, Current opinion in structural biology.
[16] T A Jones,et al. Crystal structure of human glyoxalase I—evidence for gene duplication and 3D domain swapping , 1997, The EMBO journal.
[17] Vladimir N. Vapnik,et al. The Nature of Statistical Learning Theory , 2000, Statistics for Engineering and Information Science.
[18] B D Hammock,et al. Binding of Alkylurea Inhibitors to Epoxide Hydrolase Implicates Active Site Tyrosines in Substrate Activation* , 2000, The Journal of Biological Chemistry.
[19] Tim J. P. Hubbard,et al. Data growth and its impact on the SCOP database: new developments , 2007, Nucleic Acids Res..
[20] Ramanathan Sowdhamini,et al. DIAL: a web-based server for the automatic identification of structural domains in proteins , 2005, Nucleic Acids Res..
[21] M. Jaskólski,et al. 3D domain swapping, protein oligomerization, and amyloid formation. , 2001, Acta biochimica Polonica.
[22] Minoru Kanehisa,et al. AAindex: amino acid index database, progress report 2008 , 2007, Nucleic Acids Res..
[23] Valerie Daggett,et al. Insight into ribonuclease A domain swapping by molecular dynamics unfolding simulations. , 2005, Biochemistry.
[24] J. Tainer,et al. Human CksHs2 atomic structure: a role for its hexameric assembly in cell cycle control. , 1993, Science.
[25] Ponnuthurai N. Suganthan,et al. A machine learning approach for the identification of odorant binding proteins from sequence-derived properties , 2007, BMC Bioinformatics.
[26] K. Chan,et al. Study of goldfish (Carassius auratus) growth hormone structure-function relationship by domain swapping. , 2007, Comparative biochemistry and physiology. Part B, Biochemistry & molecular biology.
[27] Charlotte M. Deane,et al. JOY: protein sequence-structure representation and analysis , 1998, Bioinform..
[28] David Eisenberg,et al. 3D domain swapping: As domains continue to swap , 2002, Protein science : a publication of the Protein Society.
[29] Linda Thöny-Meyer,et al. Helix swapping leads to dimerization of the N‐terminal domain of the c‐type cytochrome maturation protein CcmH from Escherichia coli , 2008, FEBS letters.
[30] M. Newcomer,et al. Protein folding and three-dimensional domain swapping: a strained relationship? , 2002, Current opinion in structural biology.
[31] David Eisenberg,et al. Deposition diseases and 3D domain swapping. , 2006, Structure.
[32] P. Pelosi,et al. Odorant-binding proteins. , 1994, Critical reviews in biochemistry and molecular biology.
[33] Christopher A Reynolds,et al. Dimerization and Domain Swapping in G-Protein-Coupled Receptors: A Computational Study , 2000, Neuropsychopharmacology.
[34] Gunnar Rätsch,et al. An introduction to kernel-based learning algorithms , 2001, IEEE Trans. Neural Networks.
[35] Yin Han,et al. Crystal structures of 2-methylisocitrate lyase in complex with product and with isocitrate inhibitor provide insight into lyase substrate specificity, catalysis and evolution. , 2005, Biochemistry.
[36] Jorge Chahine,et al. Computational studies of the reversible domain swapping of p13suc1. , 2005, Biophysical journal.
[37] N. Nagradova,et al. Three-Dimensional Domain Swapping in Homooligomeric Proteins and Its Functional Significance , 2002, Biochemistry (Moscow).
[38] Dong Hee Kim,et al. Bi-functional activities of chimeric lysozymes constructed by domain swapping between bacteriophage T7 and K11 lysozymes. , 2007, Journal of biochemistry and molecular biology.
[39] Ian R. Booth,et al. A Mechanism of Regulating Transmembrane Potassium Flux through a Ligand-Mediated Conformational Switch , 2002, Cell.
[40] L. Vitagliano,et al. Binding of a substrate analog to a domain swapping protein: X‐ray structure of the complex of bovine seminal ribonuclease with uridylyl(2′,5′)adenosine , 1998, Protein science : a publication of the Protein Society.
[41] Hsin-Yi Lin,et al. Molecular Dynamics Simulations of Human Cystatin C and Its L68Q Varient to Investigate the Domain Swapping Mechanism , 2007, Journal of biomolecular structure & dynamics.
[42] Kuo-Chen Chou,et al. Predicting the affinity of epitope-peptides with class I MHC molecule HLA-A*0201: an application of amino acid-based peptide prediction. , 2007, Protein engineering, design & selection : PEDS.
[43] David Eisenberg,et al. Novel subunit—subunit interactions in the structure of glutamine synthetase , 1986, Nature.
[44] Mariella Tegoni,et al. Control of domain swapping in bovine odorant-binding protein. , 2002, The Biochemical journal.
[45] M. Ashburner,et al. Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.
[46] C B Anfinsen,et al. The formation and stabilization of protein structure. , 1972, The Biochemical journal.
[47] Mark A Griep,et al. Domain swapping reveals that the C‐ and N‐terminal domains of DnaG and DnaB, respectively, are functional homologues , 2007, Molecular microbiology.
[48] K. Back,et al. Cloning of a Sesquiterpene Cyclase and Its Functional Expression by Domain Swapping Strategy , 2000, Molecules and cells.
[49] V. Daggett,et al. Characterization of the unfolding pathway of the cell-cycle protein p13suc1 by molecular dynamics simulations: implications for domain swapping. , 2000, Structure.
[50] Kuo-Chen Chou,et al. Prediction of protein structure classes with pseudo amino acid composition and fuzzy support vector machine network. , 2007, Protein and peptide letters.
[51] Vladimir Vapnik,et al. The Nature of Statistical Learning , 1995 .
[52] David Eisenberg,et al. Runaway domain swapping in amyloid-like fibrils of T7 endonuclease I. , 2006, Proceedings of the National Academy of Sciences of the United States of America.
[53] J. Thornton,et al. PQS: a protein quaternary structure file server. , 1998, Trends in biochemical sciences.
[54] Ian H. Witten,et al. Data mining in bioinformatics using Weka , 2004, Bioinform..
[55] Alexander Wlodawer,et al. Structures of the Complexes of a Potent Anti-HIV Protein Cyanovirin-N and High Mannose Oligosaccharides* , 2002, The Journal of Biological Chemistry.
[56] S. Khare,et al. Molecular mechanisms of polypeptide aggregation in human diseases. , 2007, Current protein & peptide science.
[57] Marie desJardins,et al. An interactive visualization tool to explore the biophysical properties of amino acids and their contribution to substitution matrices , 2006, BMC Bioinformatics.
[58] D Eisenberg,et al. 3D domain swapping: A mechanism for oligomer assembly , 1995, Protein science : a publication of the Protein Society.
[59] Roman A. Laskowski,et al. Enhancing the functional annotation of PDB structures in PDBsum using key figures extracted from the literature , 2007, Bioinform..
[60] J. Chappell,et al. Identifying functional domains within terpene cyclases using a domain-swapping strategy. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[61] D. Balciunas,et al. Evidence of domain swapping within the jumonji family of transcription factors. , 2000, Trends in biochemical sciences.
[62] John J. Barker,et al. Engineering an intertwined form of CD2 for stability and assembly , 1998, Nature Structural Biology.
[63] Yogendra Sharma,et al. Three-dimensional domain swapping in nitrollin, a single-domain betagamma-crystallin from Nitrosospira multiformis, controls protein conformation and stability but not dimerization. , 2009, Journal of molecular biology.
[64] M. Newcomer,et al. Protein folding and three-dimensional domain swapping: astrained relationship? , 2002 .
[65] Peter G Wolynes,et al. Overcoming residual frustration in domain-swapping: the roles of disulfide bonds in dimerization and aggregation , 2005, Physical biology.
[66] Chi-Hung Huang,et al. Molecular Dynamics Simulations To Investigate the Domain Swapping Mechanism of Human Cystatin C , 2007, Biotechnology progress.
[67] Brian A. Hemmings,et al. Domain Swapping Used To Investigate the Mechanism of Protein Kinase B Regulation by 3-Phosphoinositide-Dependent Protein Kinase 1 and Ser473 Kinase , 1999, Molecular and Cellular Biology.
[68] David Eisenberg,et al. The evolving role of 3D domain swapping in proteins. , 2004, Structure.