Results 1 to 10 of about 24,609,745 (312)
Methods of protein structure comparison. [PDF]
Methods Mol Biol, 2012 Despite its apparent simplicity, the problem of quantifying the differences between two structures of the same protein or complex is nontrivial and continues evolving. In this chapter, we described several methods routinely used to compare computational models to experimental answers in several modeling assessments.
Kufareva I, Abagyan R.
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A mathematical framework for protein structure comparison. [PDF]
PLoS Computational Biology, 2011 Comparison of protein structures is important for revealing the evolutionary relationship among proteins, predicting protein functions and predicting protein structures.
Wei Liu, Anuj Srivastava, Jinfeng Zhang
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Fast protein structure comparison through effective representation learning with contrastive graph neural networks. [PDF]
PLoS Comput Biol, 2022 Protein structure alignment algorithms are often time-consuming, resulting in challenges for large-scale protein structure similarity-based retrieval.
Xia C, Feng SH, Xia Y, Pan X, Shen HB.
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Structure comparison of the chimeric AAV2.7m8 vector with parental AAV2. [PDF]
J Struct Biol, 2020 The AAV2.7m8 vector is an engineered capsid with a 10-amino acid insertion in adeno-associated virus (AAV) surface variable region VIII (VR-VIII) resulting in the alteration of an antigenic region of AAV2 and the ability to efficiently transduce retina ...
Bennett A +10 more
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PIECE 2.0: an update for the plant gene structure comparison and evolution database. [PDF]
Nucleic Acids Res, 2017 PIECE (Plant Intron Exon Comparison and Evolution) is a web-accessible database that houses intron and exon information of plant genes. PIECE serves as a resource for biologists interested in comparing intron–exon organization and provides valuable ...
Wang Y +5 more
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A local average distance descriptor for flexible protein structure comparison. [PDF]
BMC Bioinformatics, 2014 Protein structures are flexible and often show conformational changes upon binding to other molecules to exert biological functions. As protein structures correlate with characteristic functions, structure comparison allows classification and prediction ...
Wang HW, Chu CH, Wang WC, Pai TW.
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Using Dali for Protein Structure Comparison. [PDF]
Methods in molecular biology, 2020 The exponential growth in the number of newly solved protein structures makes correlating and classifying the data an important task. Distance matrix alignment (Dali) is used routinely by crystallographers worldwide to screen the database of known structures for similarity to newly determined structures. Dali is easily accessible through the web server
L. Holm
semanticscholar +4 more sources
FlatProt: 2D visualization eases protein structure comparison [PDF]
BMC BioinformaticsBackground Understanding and comparing three-dimensional (3D) structures of proteins can advance bioinformatics, molecular biology, and drug discovery.
Tobias Olenyi +4 more
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Expanding kinetoplastid genome annotation through protein structure comparison. [PDF]
PLoS PathogensKinetoplastids belong to the Discoba supergroup, an early divergent eukaryotic clade. Although the amount of genomic information on these parasites has grown substantially, assigning gene functions through traditional sequence-based homology methods ...
Juan Manuel Trinidad-Barnech +3 more
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Frontiers in Immunology, 2023 IntroductionPeptide-HLA class I (pHLA) complexes on the surface of tumor cells can be targeted by cytotoxic T-cells to eliminate tumors, and this is one of the bases for T-cell-based immunotherapies.
Sarah Hall-Swan +5 more
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