Calculate structure: Difference between revisions
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'''Detection of Known γ-turns''' | '''Detection of Known γ-turns''' | ||
Out of the eleven classic γ-turns identified by Miner-White et. al.<ref name="Miner" /> ''Calculate structure'' only identifies and displays the hbond of thermolysin. Miner-White et. al. indicate that two hbonds are present in the classic γ-turn in thermolysin (They also state that the turn in thermolysin is the only one of the eleven that has two hbonds.), but ''Calculate structure'' only displays one and the T segment of the turn is '''not''' listed in the summary displayed in the console. (select protein; calculate structure; cartoon; color structure; calculate hbonds structure) | Out of the eleven classic γ-turns identified by Miner-White et. al.<ref name="Miner" /> ''Calculate structure'' only identifies and displays the hbond of thermolysin. Miner-White et. al. indicate that two hbonds are present in the classic γ-turn in thermolysin (They also state that the turn in thermolysin is the only one of the eleven that has two hbonds.), but ''Calculate structure'' only displays one and the T segment of the turn is '''not''' listed in the summary displayed in the console. (select protein; calculate structure; cartoon; color structure; calculate hbonds structure) | ||
* <scene name='Calculate_structure/Thermolysin2/1'>Thermolysin</scene> (8TLN, which now supersedes 3TLN which was actually used by Miner-White et. al.); <scene name='Calculate_structure/Thermolysin/2'>Isolated view</scene>. | * <scene name='Calculate_structure/Thermolysin2/1'>Thermolysin</scene> (8TLN, which now supersedes 3TLN which was actually used by Miner-White et. al.); <scene name='Calculate_structure/Thermolysin/2'>Isolated view</scene> - run calculate 'hbonds structure' to confirm presence of hbond; reported torsional angles are 75,-54. | ||
The hbonds were not identified by ''Calculate structure'' in the other ten classic turns and the T segments were not included in the summary displayed in the console. Several illustrations are given. | The hbonds were not identified by ''Calculate structure'' in the other ten classic turns and the T segments were not included in the summary displayed in the console. Several illustrations are given. | ||
* <scene name='Calculate_structure/Alpha_lytic/2'>α-lytic protease</scene>; <scene name='Calculate_structure/Alpha_lytic2/1'>Isolated turn</scene> | * <scene name='Calculate_structure/Alpha_lytic/2'>α-lytic protease</scene>; <scene name='Calculate_structure/Alpha_lytic2/1'>Isolated turn</scene> - run calculate 'hbonds structure' to confirm absence of hbond; reported torsional angles are 93, -70. | ||
* <scene name='Calculate_structure/Proteinase_a/1'>Proteinase A</scene> (2SGA); <scene name='Calculate_structure/Proteinase_a2/1'>Isolated turn</scene> | * <scene name='Calculate_structure/Proteinase_a/1'>Proteinase A</scene> (2SGA); <scene name='Calculate_structure/Proteinase_a2/1'>Isolated turn</scene> | ||
* <scene name='Calculate_structure/Ldh/1'>Lactate dehydrogenase</scene> (6LDH, supersedes 4LDH) - three classic γ-turns high lighted. | * <scene name='Calculate_structure/Ldh/1'>Lactate dehydrogenase</scene> (6LDH, supersedes 4LDH) - three classic γ-turns high lighted. | ||
