Atomic colorings

C03-0005. Determine the molecular formula, stmctural formula, and line stmcture for each compound whose ball-and-stick model follows (see Figure for atom colors) ... 

Carbide Compound Atom Color Cartesian Coordinates... 

FIGURE 3.10 The arrangements of atoms that give rise to polar and nonpolar molecules. In the notation, A stands for a central atom, X for an attached atom, and E for a lone pair. Atoms of the same color are identical X atoms colored differently belong to different elements. 

Construct a kinetic sculpture depicting an organic molecule such as methane or a longer, branched hydrocarbon. Use Styrofoam balls for atoms and springs or toothpicks for bonds between atoms. Color the Styrofoam balls to represent atom types. Find a way to show atomic vibrations and molecular rotations and translations. Your kinetic sculpture should be in constant motion. 

In Activity 1.1 an atomic model kit is constructed, then used in other activities. Atom colors are related to atomic physical and chemical properties. In Activity 8.1 a pinhole camera is constructed and used to photograph model chemical equations. In Activity 9.1a qualitative system for identifying mystery ions in solution is performed and related to detecting these ions in an art forgery. 

Figure 19 Excitonic wave function of S133BPH36 (atom colors as in Figure 15). The gray isosurface represents the probability distribution of the electron, with the hole fixed (cross) on the B impurity.

Figure 1.1 Atomic representation of a typical 3-dimensional packing model (thickness about 3 A) starting with a single Hyflon AD60X polymer chain. Atom colors gray = carbon, red = oxygen, light blue = fluorine [15].

Draw a circle at the position of each atom with the facility to vary the atomic color and radius. 

These compounds usually have colors characteristic of the central atom. Colors are ... 

Figure 2.9 Ribbon diagram of the SAMT dimer. One monomer is blue, the other is gold. SAH and salicylic acid are depicted as CPK models with atoms color-coded by atom type.

Figure 3 Comparison of the folds and dimer assembhes of (a) prokaryotic CuZnSOD with (b) bovine CnZnSOD. Functionally important side chains for the active site, disulfide cysteines, and electrostatic recognition residues are displayed with white bonds and atom-colored spheres. Dimer interface regions are highlighted in orange metals are shown as spheres copper (orange) and zinc (silver). (Reproduced from Y. Bourne, S.M. Redford, H.M. Steinman, J.R. Lepock, J.A. Tainer, and E.D. Getzoff, Proc. Natl. Acad. Sci. USA, 1996, 93, 12774. 1996 National Academy of Sciences, USA)...

Figure 8.17 (a) The Ti02(l 10) surface with surface Tie, and Tise atoms. Titanium, silver oxygen, red other atoms in the slab, green, (b) The relaxed structure of the three tri-layer slab viewed in cross-section, (c) The relaxed structure of the four tri-layer slab. Atom colors for the surface layer of (a) are used throughout (b) and (c). 

Common atom colors used in ball-and-stick models... 

TABLE A-6 KEY OF ATOM COLORS USED IN MOLECULAR MODELS IN HOLT CHEMISTRY... 

The characteristic "fog" of dry ice is actually fine water droplets formed by condensation of water vapor from the air surrounding the very cold dry ice. Refer to Table C-1 in Appendix C for a key to atom color conventions. 

Methane (CH4) consists of one carbon atom bonded to four hydrogen atoms in a tetrahedral arrangement. Here are four ways to represent a methane molecule. Refer to Table C-1 In Appendix C for a key to atom color convention. 

Figure 124. Crystal structure of a peptide nucleic acid duplex (left).901 For clarity, one strand is colored yellow and the other uses conventional atom colors PNA2-DNA triplex (right).710 Four chains are shown. The DNA chains are colored yellow and blue. The DNA sequence is 5 -(GAAGAAGAG)-3. The PNA chains are colored red and green. The PNA sequence is H2N- (CTCTTCTTC-His-Gly-Ser-Ser-Gly-His-CTTCTTCTC) -C02H.

Figure 6 Structure of N-Ac-Gly-Met-Gly peptide showing interactions ofthe sulfur atom (S) in Met with the oxygen atom (0) fA] and the nitrogen atom (N) fB] (marked with arrows) located in the N-terminal adjacent peptide bond that lead to the S. . O and S. . N-bonded radicals, respectively. Atom colors Cyan carbon blue nitrogen red oxygen yellow sulphur. H atoms are not shown.

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