Goodsell Sandbox
From Proteopedia
(Difference between revisions)
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{{STRUCTURE_1wsu | PDB=1wsu | SCENE=Goodsell_Sandbox/1wsu-recognition1/1 }} | {{STRUCTURE_1wsu | PDB=1wsu | SCENE=Goodsell_Sandbox/1wsu-recognition1/1 }} | ||
| - | + | Molecular Recognition in SelB | |
| - | <scene name='Goodsell_Sandbox/1wsu-recognition1/1'> | + | Elongation factor SelB uses several methods to recognize the selenocysteine insertion sequence found in messenger RNA. The insertion sequence forms a hairpin loop with an unstacked guanine base in the loop. This guanine forms |
| - | <scene name='Goodsell_Sandbox/1wsu-recognition2/1'> | + | <scene name='Goodsell_Sandbox/1wsu-recognition1/1'>specific hydrogen bonds with the protein and with two bridging water molecules (shown in cyan in the jmol).</scene> |
| - | <scene name='Goodsell_Sandbox/1wsu-recognition3/1'> | + | The planar base is also sandwiched between |
| - | <scene name='Goodsell_Sandbox/1wsu-recognition4/1'> | + | <scene name='Goodsell_Sandbox/1wsu-recognition2/1'>three amino acids</scene>in the protein, which form a tight hydrophobic pocket. This is best seen using a |
| - | <scene name='Goodsell_Sandbox/1wsu-recognition5/1'> | + | <scene name='Goodsell_Sandbox/1wsu-recognition3/1'>spacefilling diagram.</scene> |
| + | The overall shape of the hairpin is recognized by contacts with several | ||
| + | <scene name='Goodsell_Sandbox/1wsu-recognition4/1'>arginine and lysine amino acids.</scene> | ||
| + | In particular, notice the intimate contact formed by both the charged nitrogen and hydrophobic carbon chain of | ||
| + | <scene name='Goodsell_Sandbox/1wsu-recognition5/1'>arginine 606.</scene> | ||
Revision as of 18:06, 15 July 2008
Molecular Recognition in SelB Elongation factor SelB uses several methods to recognize the selenocysteine insertion sequence found in messenger RNA. The insertion sequence forms a hairpin loop with an unstacked guanine base in the loop. This guanine forms The planar base is also sandwiched between in the protein, which form a tight hydrophobic pocket. This is best seen using a The overall shape of the hairpin is recognized by contacts with several In particular, notice the intimate contact formed by both the charged nitrogen and hydrophobic carbon chain of
