{"product_id":"hydration-structures-of-proteins-atomic-details-9784431569176","title":"Hydration Structures of Proteins: Atomic Details","description":"\u003cp\u003e1. Introduction\u003c\/p\u003e \u003cp\u003e1.1 Water: the cradle of life \u003c\/p\u003e \u003cp\u003e1.2 Structure and interaction of water molecules \u003c\/p\u003e \u003cp\u003e1.2.1 Structure of water molecules\u003c\/p\u003e \u003cp\u003e1.2.2 Interactions between water molecules\u003c\/p\u003e \u003cp\u003e1.2.3 Hydrogen bond between water molecules\u003c\/p\u003e \u003cp\u003e1.3 Phase diagram of water\u003c\/p\u003e \u003cp\u003e1.3.1 Three phases of water\u003c\/p\u003e \u003cp\u003e1.3.2 Hexagonal ice and amorphous ice\u003c\/p\u003e 1.4 Properties of liquid water\u003cp\u003e\u003c\/p\u003e \u003cp\u003e1.4.1 Unusual physical properties\u003c\/p\u003e \u003cp\u003e1.4.2 Brownian motion in liquid water\u003c\/p\u003e \u003cp\u003e1.4.3 Structure of liquid water\u003c\/p\u003e \u003cp\u003e1.5 Hydration\u003c\/p\u003e \u003cp\u003e1.5.1 Solvation\u003c\/p\u003e \u003cp\u003e1.5.2 Hydration\u003c\/p\u003e \u003cp\u003e1.5.3 Hydration of hydrophobic molecules\u003c\/p\u003e \u003cp\u003e1.6 Hydration structures of proteins\u003c\/p\u003e \u003cp\u003e1.6.1 Proteins\u003c\/p\u003e \u003cp\u003e1.6.2 Hydration structures of proteins\u003c\/p\u003e \u003cp\u003e1.7 Scope of this monograph\u003c\/p\u003e \u003cp\u003e References\u003c\/p\u003e \u003cp\u003e\u003cb\u003e \u003c\/b\u003e\u003c\/p\u003e \u003cp\u003e2. Biophysical methods to visualize hydration structures of proteins\u003c\/p\u003e \u003cp\u003e2.1 Introduction \u003c\/p\u003e \u003cp\u003e2.2 X-ray crystallography at cryogenic temperatures\u003c\/p\u003e \u003cp\u003e2.2.1 Outline\u003c\/p\u003e \u003cp\u003e2.2.2 Crystallographic structure refinement\u003c\/p\u003e \u003cp\u003e2.2.3 Difference Fourier map\u003c\/p\u003e \u003cp\u003e2.2.4 X-ray crystallography at cryogenic temperatures\u003c\/p\u003e \u003cp\u003e2.3 Cryogenic electron microscopy\u003c\/p\u003e 2.3.1 Outline\u003cp\u003e\u003c\/p\u003e \u003cp\u003e2.3.2 Specimen preparation and image collection\u003c\/p\u003e \u003cp\u003e2.3.3 Image processing and single-particle analysis\u003c\/p\u003e 2.4 Time-resolved fluorescence measurement\u003cp\u003e\u003c\/p\u003e \u003cp\u003e2.4.1 Outline\u003c\/p\u003e \u003cp\u003e2.4.2 Up-conversion method\u003c\/p\u003e 2.5 Molecular dynamic simulation\u003cp\u003e\u003c\/p\u003e \u003cp\u003e2.5.1 Outline\u003c\/p\u003e \u003cp\u003e2.5.2 Force field \u003c\/p\u003e References\u003cp\u003e\u003c\/p\u003e \u003cp\u003e\u003cb\u003e \u003c\/b\u003e\u003c\/p\u003e \u003cp\u003e3. Hydration structures inside proteins \u003c\/p\u003e \u003cp\u003e 3.1 Introduction\u003c\/p\u003e \u003cp\u003e3.2 Water molecules inside proteins\u003c\/p\u003e 3.2.1 Tightly-bound water molecules\u003cp\u003e\u003c\/p\u003e \u003cp\u003e3.2.2 Water molecules confined inside proteins\u003c\/p\u003e \u003cp\u003e3.3 Hydration water molecules as glue in protein complexes\u003c\/p\u003e \u003cp\u003e 3.3.1 Hydration at the subunit interface of a protein complex\u003c\/p\u003e \u003cp\u003e 3.3.2 Hydration sites conserved in protein families \u003c\/p\u003e \u003cp\u003e3.4 Hydration water molecules as lubricant at protein interface\u003c\/p\u003e \u003cp\u003e3.5 Hydration water molecules in the ligand-binding sites\u003c\/p\u003e References\u003cp\u003e\u003c\/p\u003e \u003cp\u003e\u003cb\u003e \u003c\/b\u003e\u003c\/p\u003e \u003cp\u003e4. Hydration layer around proteins\u003c\/p\u003e \u003cp\u003e4.1 Introduction\u003c\/p\u003e \u003cp\u003e4.2 Hydration layer\u003c\/p\u003e \u003cp\u003e 4.2.1 First- and second-layer classes\u003c\/p\u003e \u003cp\u003e4.2.2 Distance distribution and positional fluctuation\u003c\/p\u003e \u003cp\u003e4.2.3 Monolayer hydration\u003c\/p\u003e \u003cp\u003e4.2.4 Contact class\u003c\/p\u003e \u003cp\u003e4.3 Local patterns in protein hydration\u003c\/p\u003e \u003cp\u003e 4.3.1 Patterns on hydrophilic surfaces\u003c\/p\u003e 4.3.2 Hydration on hydrophobic surfaces\u003cp\u003e\u003c\/p\u003e \u003cp\u003e4.3.3 Tetrahedral hydrogen bond geometry of water molecules\u003c\/p\u003e 4.4 Hydration structures in molecular dynamics simulation\u003cp\u003e\u003c\/p\u003e \u003cp\u003e 4.4.1 Computation of solvent density\u003c\/p\u003e \u003cp\u003e 4.4.2 Characteristic of solvent density\u003c\/p\u003e \u003cp\u003e References\u003c\/p\u003e \u003cp\u003e \u003c\/p\u003e 5. Structural characteristics in local hydration\u003cp\u003e\u003c\/p\u003e \u003cp\u003e5.1 Introduction \u003c\/p\u003e \u003cp\u003e5.2 Empirical hydration distribution around polar atoms\u003c\/p\u003e 5.2.1 Construction\u003cp\u003e\u003c\/p\u003e \u003cp\u003e5.2.2 Distribution around polar protein atoms\u003c\/p\u003e \u003cp\u003e5.2.3 Hydration of aromatic acceptors\u003c\/p\u003e 5.2.4 Characteristics and benefits of the empirical hydration distributions.\u003cp\u003e\u003c\/p\u003e \u003cp\u003e5.2.5 Tetrahedral hydrogen bond geometry \u003c\/p\u003e \u003cp\u003e5.3 Assessment of force fields of polar protein atoms\u003c\/p\u003e \u003cp\u003e5.3.1 Models of water molecule suitable for simulation\u003c\/p\u003e \u003cp\u003e5.3.2 Hydration of deprotonated polar atoms in \u003ci\u003esp\u003c\/i\u003e\u003csup\u003e2\u003c\/sup\u003e-hybridization\u003c\/p\u003e \u003cp\u003e5.3.3 Hydration of protonated nitrogen atoms in \u003ci\u003esp\u003c\/i\u003e\u003csup\u003e2\u003c\/sup\u003e- or \u003ci\u003esp\u003c\/i\u003e\u003csup\u003e3\u003c\/sup\u003e- hybridization\u003c\/p\u003e \u003cp\u003e5.3.4 H\u003cbr\u003e\u003cbr\u003e\u003cbr\u003e\u003cb\u003eAbout the Author\u003c\/b\u003e\u003cbr\u003e\u003c\/p\u003e\u003cp\u003eMasayoshi Nakasako is a professor at Keio University, and his work involves structural analysis of soft matter. He received his Doctor of Science from Tohoku University in 1990. After his doctoral program, he was a research associate at the Faculty of Pharmaceutical Sciences, The University of Tokyo; a researcher at RIKEN; a lecturer at the Institute of Molecular and Cellular Biosciences, The University of Tokyo; and an assistant professor at Keio University in 2002. In 2005, he was promoted to his present position. Currently, he also serves Spring-8 Center, RIKEN, as a guest researcher.\u003c\/p\u003e \u003cp\u003eHis research interest is in imaging of protein hydration, protein structures, and cells by various physicochemical experimental techniques including X-ray imaging using synchrotron radiation and X-ray free electron laser and molecular dynamics simulations.\u003c\/p\u003e\u003cbr\u003e","brand":"Springer","offers":[{"title":"Default Title","offer_id":50862306099474,"sku":"9784431569176","price":168.99,"currency_code":"USD","in_stock":true}],"thumbnail_url":"\/\/cdn.shopify.com\/s\/files\/1\/0831\/4771\/8930\/files\/img_634db548-1936-45f1-a84e-ffb122d5d064.jpg?v=1737619171","url":"https:\/\/surprise-castle.myshopify.com\/products\/hydration-structures-of-proteins-atomic-details-9784431569176","provider":"Surprise Castle","version":"1.0","type":"link"}