James D Watson/Proteins Intro: Difference between revisions
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The viewer below shows the structural superposition of the triphosphate conformation of H-ras p21 (PDB entry 5p21) with Gdp-bound human rab21 gtpase (PDB entry 1z0i), 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 ligands bound superpose well and comparison of the ligand binding loops show significant structural similarity. | The viewer below shows the structural superposition of the triphosphate conformation of H-ras p21 (PDB entry 5p21) with Gdp-bound human rab21 gtpase (PDB entry 1z0i), 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 ligands bound superpose well and comparison of the ligand binding loops show significant structural similarity. | ||
<applet load='Image:Ras_superposed.pdb' size='400' frame='true' align='left' /> | |||
Revision as of 11:51, 5 June 2008
Introduction to proteinsIntroduction to proteins
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.
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| 5p21, resolution 1.35Å () | |||||||||
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| Ligands: | , | ||||||||
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| Resources: | FirstGlance, OCA, RCSB, PDBsum | ||||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||||
Structural superpositionStructural superposition
The viewer below shows the structural superposition of the triphosphate conformation of H-ras p21 (PDB entry 5p21) with Gdp-bound human rab21 gtpase (PDB entry 1z0i), the structural superposition was made using the MSDfold(SSM)1 server at the EBI2. 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 ligands bound superpose well and comparison of the ligand binding loops show significant structural similarity.
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