| Description |
1 online resource (X, 255 p. 96 illus., 94 illus. in color. :) online resource |
| Series |
Learning Materials in Biosciences |
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Learning materials in biosciences.
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| Contents |
Intro -- Acknowledgements -- Contents -- 1: The Rationale Behind This Workbook -- References -- 2: An Archive and a Tool: PDB and PyMOL -- 2.1 The Protein Data Bank (PDB) -- 2.2 PyMOL -- Box 2.1 Some Features of PyMOL -- Box 2.2 Using the Mouse in PyMOL to Select Atoms, Residues, Chains, and Molecules -- Box 2.3 Drawing the HIV-1 Protease in . Fig. 1.1 starting from . Fig. 2.6 -- Box 2.4 Drawing the Potassium Channel in . Fig. 1.2 -- 2.3 Summary of PDB Information Discussed in this Chapter -- 2.4 Summary of PyMOL Commands Introduced in this Chapter -- 2.4.1 General -- 2.4.2 Organization |
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2.4.3 Viewing -- 2.4.4 Selecting -- 2.4.5 Coloring -- 2.4.6 Changing -- 2.5 Further Reading -- 2.5.1 Books -- 2.5.2 Online Resources -- 2.5.2.1 PDB -- 2.5.2.2 PyMOL -- 2.6 Exercises (. Table 2.3) -- References -- 3: Exploring Fundamentals -- 3.1 Background -- Box 3.1 The Ångström -- 3.2 The Structure of Hemoglobin -- Box 3.2 Asymmetric Units, Unit Cells, Biological Assemblies, and Space Groups -- Box 3.3 Drawing the Images of Hemoglobin in . Fig. 3.2 and in the PDB Entry for 2mhb -- 3.3 The Plant Protease Papain -- Box 3.4 Drawing the Structure of Papain in . Fig. 3.3 |
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Box 3.5 Visualizing Amino Acids in Papain According to Their Properties as in . Fig. 3.5 -- Box 3.6 Visualizing the Amino Acids Proline, Cysteine, and Glycine in Papain as in . Fig. 3.6 -- 3.4 Electrostatic Interactions -- Box 3.7 Understanding the Protonation of Ionizing Groups in Proteins -- Box 3.8 Drawing the Active Site of Papain in . Fig. 3.8 -- Box 3.9 Drawing Selected Residues of Papain Forming Electrostatic Interactions as in . Fig. 3.9 -- 3.5 Hydrogen Bond Interactions Between Side-Chains -- 3.6 Hydrogen Bonds in Tyrosyl-tRNA Synthetase |
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Box 3.10 Drawing Selected Residues of tRNA Synthetase Forming van der Waals Interactions as in . Fig. 3.12c -- 3.7 Van der Waals Interactions -- Box 3.11 Drawing Selected Residues of Papain Forming van der Waals Interactions as in . Fig. 3.13 -- 3.8 Summary of PDB Information Discussed in This Chapter -- 3.9 Summary of PyMOL Commands Introduced in This Chapter -- 3.9.1 General and Settings -- 3.9.2 Organization -- 3.9.3 Viewing -- 3.9.4 Selecting -- 3.9.5 Coloring -- 3.10 Further Reading -- 3.10.1 Books -- 3.10.2 Online Resources -- 3.11 Exercises (. Table 3.4) -- References |
| Summary |
This textbook introduces the basics of protein structure and logically explains how to use online software to explore the information in protein structure databases. Readers will find easily understandable, step-by step exercises and video-trainings to support them in grasping the fundamental concepts. After reading this book, readers will have the skills required to independently explore and analyze macromolecular structures, will be versed in extracting information from protein databases and will be able to visualize protein structures using specialized software and on-line algorithms. This book is written for advanced undergraduates and PhD students wishing to use information from structural biology in their assignments and research and will be a valuable source of information for all those interested in applied and theoretical aspects of structural biology |
| Subject |
Biochemistry.
|
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Science -- Study and teaching.
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Medicine.
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RNA-ligand interactions
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biochemistry.
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medicines (material)
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Biochemistry.
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Medicine.
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Science -- Study and teaching.
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| Form |
Electronic book
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| ISBN |
9783319768588 |
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3319768581 |
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