Serine protease
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| - | < | + | <StructureSection load='1ppb' size='450' side='right' scene='' caption='Thrombin light chain (aqua) and heavy chain (red) complex with inhibitor (PDB code [[1ppb]])'> |
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| - | '''Serine proteases''', so called due to the presence of a serine residue in the active site, are a class of enzymes that catalyse the hydrolysis of peptide bonds in proteins. | + | '''Serine proteases''', or '''proteinases''', so called due to the presence of a serine residue in the active site, are a class of enzymes that catalyse the hydrolysis of peptide bonds in proteins. |
==Thrombin== | ==Thrombin== | ||
| - | '''Thrombin''' is a " | + | '''Thrombin''' is a "trypsin-like" serine protease. Its structure (PDB code [[1ppb]]) is shown here with a peptide chloroketone inhibitor (PPACK). The thrombin A chain (cleaved N terminal fragement) is shown in cyan and the B chain is shown in red. The <scene name='Serine_Protease/Active_site/2'>Active site</scene> is made up of a catalytic triad of Ser195, His57 and Asp102, backed up by Ser214. The peptide chloroketone inhibitor (PPACK) is shown in purple. A closeup shows the <scene name='Serine_Protease/Activation_site/2'>activation site</scene> at which the sidechain of Asp194 makes a salt link with the N-terminus at residue 16, newly formed when the A chain is cleaved in the zymogen-to-enzyme activation process. The specificity pocket is on one side of the throat of the domain 2 beta barrel, and the activation site is close next to it. |
The B chain consists of <scene name='Serine_Protease/Domains/1'>two domains</scene>. As is true for all of the "trypsin-like" serine proteases, each of the two thrombin domains consists mainly of a 6-stranded, antiparallel beta barrel. The specificity pocket (here filled with the Lys sidechain of the PPACK inhibitor) is in one side of the throat of the domain 2beta barrel, and the activation site is close next to it. | The B chain consists of <scene name='Serine_Protease/Domains/1'>two domains</scene>. As is true for all of the "trypsin-like" serine proteases, each of the two thrombin domains consists mainly of a 6-stranded, antiparallel beta barrel. The specificity pocket (here filled with the Lys sidechain of the PPACK inhibitor) is in one side of the throat of the domain 2beta barrel, and the activation site is close next to it. | ||
| + | ==3D structures of thrombin== | ||
| + | [[Thrombin]] | ||
| - | < | + | THis is <scene name='Serine_Protease/Aapk/1'>our protein fro CHEM361</scene>. |
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| - | ==Trypsin | + | ==Trypsin== |
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| + | See [[Trypsin]] | ||
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| + | ==Gilman suc-AAPK-trypsin== | ||
| + | [[2agg]] | ||
{{Clear}} | {{Clear}} | ||
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