Sheets in Proteins: Difference between revisions
No edit summary |
No edit summary |
||
| Line 1: | Line 1: | ||
<Structure load='Silk 64.mol' size='500' frame='true' align='right' caption='' scene='Sheets_in_Proteins/Syn_sheet1/2' /> | <Structure load='Silk 64.mol' size='500' frame='true' align='right' caption='Structures of Sheets' scene='Sheets_in_Proteins/Syn_sheet1/2' /> | ||
A β-pleated sheet contains multiple peptide strands that are positioned adjacent to one another as the one shown on the right<ref>This model was hand constructed using HyperChem and setting all psi and phi values to 135<sup>0</sup> and -139<sup>0</sup>, respectively.</ref>. The planes of the <scene name='Sheets_in_Proteins/Syn_sheet2/2'>pleats</scene> are formed by the planes of the peptide bond. The alpha carbons of the peptide chain are at the valleys and peaks of the pleats. The peptides are <scene name='Sheets_in_Proteins/Syn_sheet3/3'>rainbow colored</scene> (blue amino end changing to red carboxy end) to show that the adjacent peptides are running in opposite directions making the sheet antiparallel. Another way of detecting the <scene name='Sheets_in_Proteins/Syn_sheet7/1'>antiparallel sheet</scene> is by displaying as cartoon. The adjacent chains align so that <scene name='Sheets_in_Proteins/Syn_sheet4/1'>hydrogne bonds</scene> are formed between the imino hydrogens of one chain and the carbonyl oxygens of an adjacent chain. These hydrogen bonds provide the major attractive force which maintains the sheet structure. Psi and phi values that permit this alignment in antiparallel sheets have <scene name='Sheets_in_Proteins/Syn_sheet5/1'>median values</scene> of +135<sup>0</sup> and -139<sup>0</sup>, respectively. The median values for a parallel sheet are +113<sup>0</sup> and -119<sup>0</sup>. | A β-pleated sheet contains multiple peptide strands that are positioned adjacent to one another as the one shown on the right<ref>This model was hand constructed using HyperChem and setting all psi and phi values to 135<sup>0</sup> and -139<sup>0</sup>, respectively.</ref>. (<scene name='Sheets_in_Proteins/Syn sheet1/2'> (Initial scene)</scene>) The planes of the <scene name='Sheets_in_Proteins/Syn_sheet2/2'>pleats</scene> are formed by the planes of the peptide bond. The alpha carbons of the peptide chain are at the valleys and peaks of the pleats. The peptides are <scene name='Sheets_in_Proteins/Syn_sheet3/3'>rainbow colored</scene> (blue amino end changing to red carboxy end) to show that the adjacent peptides are running in opposite directions making the sheet antiparallel. Another way of detecting the <scene name='Sheets_in_Proteins/Syn_sheet7/1'>antiparallel sheet</scene> is by displaying as cartoon. The adjacent chains align so that <scene name='Sheets_in_Proteins/Syn_sheet4/1'>hydrogne bonds</scene> are formed between the imino hydrogens of one chain and the carbonyl oxygens of an adjacent chain. These hydrogen bonds provide the major attractive force which maintains the sheet structure. Psi and phi values that permit this alignment in antiparallel sheets have <scene name='Sheets_in_Proteins/Syn_sheet5/1'>median values</scene> of +135<sup>0</sup> and -139<sup>0</sup>, respectively. The median values for a parallel sheet are +113<sup>0</sup> and -119<sup>0</sup>. | ||
Twisted sheets are found in globular proteins. Unlike the <scene name='Sheets_in_Proteins/Syn_sheet6/2'>above two types</scene> of sheets the valleys and the peaks of a <scene name='Sheets_in_Proteins/Gly_phosyl2/2'>twisted sheet</scene><ref>This sheet is part of the structure of domain 2 of glycogen phosphorylase (PDB code [[1abb]]).</ref> do not fall on parallel lines. Observe that the sheet is <scene name='Sheets_in_Proteins/Gly_phosyl/4'>parallel</scene>, and showing <scene name='Sheets_in_Proteins/Gly_phosyl3/1'>hydrogen bonds</scene>. Notice that in contrast to the hydrogen bonds of the antiparallel sheet shown above where the bonds were parallel here the bonds are diagonal to each other. Show <scene name='Sheets_in_Proteins/Gly_phosyl5/2'>psi and phi values</scene> for randomly chosen residues. There are a wide range of values for both psi and phi, +96 to +148 and -108 to -142, respectively. Sheet shown in the context of <scene name='Sheets_in_Proteins/Gly_phosyl4/1'>domain 2</scene> of glycogen phosphorylase. Examples of <scene name='Sheets_in_Proteins/1dtg1/1'>antiparallel sheets</scene><ref>These sheets are part of the structure of human transferrin n-lobe mutant (PDB code [[1dtg]]).</ref>. Showing only the <scene name='Sheets_in_Proteins/1dtg2/2'>sheets</scene>, and with <scene name='Sheets_in_Proteins/1dtg3/1'>hydrogen bonds</scene>. Show the <scene name='Sheets_in_Proteins/1dtg4/3'> range</scene> of values for psi and phi for randomly chosen residues to be +90 to +167 and -98 to -178, respectively. These ranges overlap the values for the twisted parallel showing that there is no difference in the values for the two types of twisted sheets. Median values for psi and phi are +140<sup>0</sup> and -125<sup>0</sup>, respectively, regardless if of parallel or antiparallel. | Twisted sheets are found in globular proteins. Unlike the <scene name='Sheets_in_Proteins/Syn_sheet6/2'>above two types</scene> of sheets the valleys and the peaks of a <scene name='Sheets_in_Proteins/Gly_phosyl2/2'>twisted sheet</scene><ref>This sheet is part of the structure of domain 2 of glycogen phosphorylase (PDB code [[1abb]]).</ref> do not fall on parallel lines. Observe that the sheet is <scene name='Sheets_in_Proteins/Gly_phosyl/4'>parallel</scene>, and showing <scene name='Sheets_in_Proteins/Gly_phosyl3/1'>hydrogen bonds</scene>. Notice that in contrast to the hydrogen bonds of the antiparallel sheet shown above where the bonds were parallel here the bonds are diagonal to each other. Show <scene name='Sheets_in_Proteins/Gly_phosyl5/2'>psi and phi values</scene> for randomly chosen residues. There are a wide range of values for both psi and phi, +96 to +148 and -108 to -142, respectively. Sheet shown in the context of <scene name='Sheets_in_Proteins/Gly_phosyl4/1'>domain 2</scene> of glycogen phosphorylase. Examples of <scene name='Sheets_in_Proteins/1dtg1/1'>antiparallel sheets</scene><ref>These sheets are part of the structure of human transferrin n-lobe mutant (PDB code [[1dtg]]).</ref>. Showing only the <scene name='Sheets_in_Proteins/1dtg2/2'>sheets</scene>, and with <scene name='Sheets_in_Proteins/1dtg3/1'>hydrogen bonds</scene>. Show the <scene name='Sheets_in_Proteins/1dtg4/3'> range</scene> of values for psi and phi for randomly chosen residues to be +90 to +167 and -98 to -178, respectively. These ranges overlap the values for the twisted parallel showing that there is no difference in the values for the two types of twisted sheets. Median values for psi and phi are +140<sup>0</sup> and -125<sup>0</sup>, respectively, regardless if of parallel or antiparallel. | ||
== Notes and References == | == Notes and References == | ||
<references/> | <references/> | ||