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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
1ml3NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.12

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
1ml3NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.121.000
1qxsNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.604
1gypNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.590
3e5rNADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic1.2.1.120.589
4o59NADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.574
1znqNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.571
3dmtNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.563
1a7kNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.559
3lvfNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.545
3ksdNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.543
4p8rNADGlyceraldehyde-3-phosphate dehydrogenase/0.542
3hjaNADGlyceraldehyde-3-phosphate dehydrogenase/0.540
4k9dNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.531
3dbvNADGlyceraldehyde-3-phosphate dehydrogenase/0.528
1gd1NADGlyceraldehyde-3-phosphate dehydrogenase/0.526
2vynNADGlyceraldehyde-3-phosphate dehydrogenase A/0.522
3l4sNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.520
3cifNADGlyceraldehyde-3-phosphate dehydrogenase/0.517
3cmcNADGlyceraldehyde-3-phosphate dehydrogenase/0.511
3k2bNADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic1.2.1.130.511
3docNADGlyceraldehyde-3-phosphate dehydrogenase/0.508
1nptNADGlyceraldehyde-3-phosphate dehydrogenase/0.504
1nqaNADGlyceraldehyde-3-phosphate dehydrogenase/0.504
2vyvNADGlyceraldehyde-3-phosphate dehydrogenase A/0.503
3cpsNADGlyceraldehyde-3-phosphate dehydrogenase/0.502
3b20NADGlyceraldehyde-3-phosphate dehydrogenase/0.493
3idsNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.477
1u8fNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.459
2pkrNDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic1.2.1.130.459
1nboNADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic1.2.1.130.445