James D Watson/Proteins Intro

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-==Introduction to proteins==
+#REDIRECT [[User:James D Watson/Proteins Intro]]
-This will be the start of an attempt to create a topic based page that could be used in teaching. I will spend more time editing it asap.
-<scene name='James_D_Watson/Proteins_Intro/Ligand_binding_site_ras/1'>Click to see walker motif</scene>
-{{STRUCTURE_5p21 |  PDB=5p21  |  SCENE=  }}
-{{Clear}}
-==Structural superposition==
-The viewer below left shows the structural superposition of the triphosphate conformation of H-ras p21 (PDB entry 5p21 coloured red) with Gdp-bound human rab21 gtpase (PDB entry 1z0i - coloured blue), the structural superposition was made using the MSDfold(SSM)[http://www.ebi.ac.uk/msd-srv/ssm/ 1] server at the EBI[http://www.ebi.ac.uk 2]. Note that the global fold of these two proteins is almost identical yet their sequence identity is only 29.6% (as determined using FASTA). The viewer below right shows the p-loops of both structures superposed. The ligands bound superpose particularly well and comparison of the two p-loops loops show significant structural similarity but also highlights the sequence differences between the two proteins.
-<applet load='5p21' size='350' frame='true' align='left' script='James_D_Watson/Proteins_Intro/Superposition_ras_structures/1' />
-<applet load='5p21' size='350' frame='true' align='right' script='James_D_Watson/Proteins_Intro/Superposition_ras_ploops/2' />
-{{Clear}}