Sandbox Reserved 1468
From Proteopedia
(Difference between revisions)
Line 11: | Line 11: | ||
== The primary <scene name='79/799596/Vesb_secondary_structure/1'>secondary structure</scene> of VesB is beta sheets, with some alpha helices and a few random coils. VesB has two <scene name='79/799596/Disulfide_bonds/1'>disulfide bonds</scene> and <scene name='79/799596/Domains/1'>two domains</scene> that make up its tertiary structure. There is an N-terminal protease domain with a trypsin/chymotrypsin fold and also a C-terminal Ig fold. <scene name='79/799596/Spacefill/1'>VesB space-filling view</scene> shows the size of the protein and the area each molecule occupies. There are both <scene name='79/799596/Hydrophobic_highlighted/1'>hydrophilic and hydrophobic</scene> sections of VesB. Its active site is hydrophobic, as is much of its surface. The alpha helices make up the majority of the hydrophilic areas, showing areas where water would be attracted to VesB. The crystal structure of VesB was solved without a ligand, however, any protein containing RX is a VesB ligand. His78, Asp125, and Ser221 make up the <scene name='79/799596/Catalytic_triad/1'>VesB catalytic triad</scene>. Aspartic acid is deprotonated and proton transfer moves from histidine to aspartic acid, meaning histidine is also deprotonated. Histidine then accepts a proton from serine's hydroxyl group, allowing serine to attack a substrate. This trio of amino acids work together to help VesB effectively cleave the substrate. Asp194 and Asp 220 coordinate the N terminus amino group in active VesB. Ile16 and Ile33 occupies the hydrophobic pocket while Val159 and Val180 assist in hydrogen bonding. These amino acids help form the <scene name='79/799596/Active_site/5'>active site</scene> of VesB. <scene name='79/799596/Leu158/1'>Leu158</scene> assists in cleaving the substrate. <scene name='79/799596/Tyr250/1'>Tyr 250</scene> coordinates an Na+ ion that binds to and allosterically enhances thrombin activity. Proline residue near <scene name='79/799596/Lys224/1'>Lys224</scene> inhibits this Na+ ion binding. == | == The primary <scene name='79/799596/Vesb_secondary_structure/1'>secondary structure</scene> of VesB is beta sheets, with some alpha helices and a few random coils. VesB has two <scene name='79/799596/Disulfide_bonds/1'>disulfide bonds</scene> and <scene name='79/799596/Domains/1'>two domains</scene> that make up its tertiary structure. There is an N-terminal protease domain with a trypsin/chymotrypsin fold and also a C-terminal Ig fold. <scene name='79/799596/Spacefill/1'>VesB space-filling view</scene> shows the size of the protein and the area each molecule occupies. There are both <scene name='79/799596/Hydrophobic_highlighted/1'>hydrophilic and hydrophobic</scene> sections of VesB. Its active site is hydrophobic, as is much of its surface. The alpha helices make up the majority of the hydrophilic areas, showing areas where water would be attracted to VesB. The crystal structure of VesB was solved without a ligand, however, any protein containing RX is a VesB ligand. His78, Asp125, and Ser221 make up the <scene name='79/799596/Catalytic_triad/1'>VesB catalytic triad</scene>. Aspartic acid is deprotonated and proton transfer moves from histidine to aspartic acid, meaning histidine is also deprotonated. Histidine then accepts a proton from serine's hydroxyl group, allowing serine to attack a substrate. This trio of amino acids work together to help VesB effectively cleave the substrate. Asp194 and Asp 220 coordinate the N terminus amino group in active VesB. Ile16 and Ile33 occupies the hydrophobic pocket while Val159 and Val180 assist in hydrogen bonding. These amino acids help form the <scene name='79/799596/Active_site/5'>active site</scene> of VesB. <scene name='79/799596/Leu158/1'>Leu158</scene> assists in cleaving the substrate. <scene name='79/799596/Tyr250/1'>Tyr 250</scene> coordinates an Na+ ion that binds to and allosterically enhances thrombin activity. Proline residue near <scene name='79/799596/Lys224/1'>Lys224</scene> inhibits this Na+ ion binding. == | ||
+ | == VesB is uncompetitively inhibited by Boc-Gln-Ala-Arg-7-amino-4-AMC. This shows that this peptide does not have an impact on VesB function and that VesB is able to effectively cleave substrate. == | ||
</StructureSection> | </StructureSection> | ||
== References == | == References == | ||
<references/> | <references/> |
Revision as of 00:10, 17 November 2018
This Sandbox is Reserved from October 22, 2018 through April 30, 2019 for use in the course Biochemistry taught by Bonnie Hall at the Grand View University, Des Moines, IA USA. This reservation includes Sandbox Reserved 1456 through Sandbox Reserved 1470. |
To get started:
More help: Help:Editing |
VesB Structure
|