Lysozyme ribbon representations

FIGURE 1119 The lysozyme molecule is a typical enzyme molecule. Lysozyme is present in a number of places in the body, including tears and the mucus in the nose. One of its functions is to attack the cell walls of bacteria and destroy them. This "ribbon" representation shows only the general arrangement of the atoms to emphasize the overall shape of the molecule the ribbon actually consists of amino acids linked together (Section 19.13). 

Shown here are cytochrome c (PDB ID 1CCR), lysozyme (PDB ID 3LYM), and ribonuclease (PDB ID 3RN3). Each protein is shown in surface contour and in a ribbon representation, in the same orientation. In the ribbon depictions, regions in the f) conformation are... 

Figure 4.17. Graphic display of KineMage in ribbon representation. The Ca chain of hen s egg-white lysozyme (ILYZ.kin derived from ILYZ.pdb) is displayed in ribbons showing secondary structure features.

FIGURE 6 Ribbon representations of lysozyme and neoculin. (A) Tetragonal form of lysozyme solved at 1.3-A resolution (pdb entry 193L). (B) One of the four crystallographically independent heterodimers of neoculin (pdb entry 2d04). 

Figure 2-124. The most common molecular graphic representations of biological molecules (lysozyme) a) balls and sticks b) backbone c) cartoon (including the cylinder, ribbon, and tube model) and of inorganic molecules (YBajCujO , d) polyhedral (left) and the same molecule with balls and sticks (right),...

Figure 4.11. Graphic representations of protein 3D structure. Three-dimensional graphics of hen s egg-white lysozyme as visualized with RasMol (first and second rows, ILYZ.pdb) and Cn3D (third row, ILYZ.val) are shown from left to right (color type) in wireframe (atom), spacefill (atom), dots (residue), backbone (residue), ribbons (secondary structure), strands (secondary structure), secondary structure (secondary structure), ball-and-stick (residue), and tubular (domain) representations.

Figure 8.7 Active sites may include distant residues. (A) Ribbon diagram of the enzyme lysozyme with several components of the active site shown in color. (B) A schematic representation of the primary structure of lysozyme shows that the active site is composed of residues that come from different parts of the polypeptide chain, [Drawn from 6LYZ.pdb.]...

Figure 1.24 Depiction of disulphide bridges from Lysozyme (hen egg-white) (pdb 6lyz). (a) Ribbon Display Structure (see Section 1.2.5 each flat helical ribbon is an a-helix each flat strand is /3-strand thin strands are loops and turns) of lysozyme (side view), atoms and bonds of amino acid side chains of cysteine residues involved in disulphide bridges are rendered in ball and stick representation with sulphur (yellow) carbon (grey), nitrogen (blue) and oxygen (red) (b) ball and stick representation of cysteine residues forming a right-handed disulphide bridge, atoms and bonds labelled as for (a) (c) ball and stick representation of cysteine residues from a left-handed disulphide bridge, atoms and bonds labelled as for (a).

Figure 5.1 Common representations of the three-dimensional structures of proteins Three-dimensional graphics of hen s egg-white lysozyme as visualized with RasMol (first row, ILYZ.pdb) are displayed in wireframe (residue type), spacefill (atom type) and backbone (structure type). The Cj, mainchain with side chain residues is displayed with KineMage (second raw left). The secondary structure representations (a helices and P-sheets) are visualized with KineMage (lLYZ.kin) in ribbons and arrows (second raw center), and Cn3D (ILYZ.cnS) in cylinders and arrows (second raw right).

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