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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
3ksdNADGlyceraldehyde-3-phosphate dehydrogenase 1

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3ksdNADGlyceraldehyde-3-phosphate dehydrogenase 1/1.000
3lvfNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.627
3l4sNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.619
3e5rNADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic1.2.1.120.572
4p8rNADGlyceraldehyde-3-phosphate dehydrogenase/0.569
1nptNADGlyceraldehyde-3-phosphate dehydrogenase/0.564
4o59NADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.564
4k9dNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.562
3docNADGlyceraldehyde-3-phosphate dehydrogenase/0.557
1ml3NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.554
3cifNADGlyceraldehyde-3-phosphate dehydrogenase/0.550
1nqaNADGlyceraldehyde-3-phosphate dehydrogenase/0.548
2vynNADGlyceraldehyde-3-phosphate dehydrogenase A/0.546
3dbvNADGlyceraldehyde-3-phosphate dehydrogenase/0.544
1gd1NADGlyceraldehyde-3-phosphate dehydrogenase/0.541
3cpsNADGlyceraldehyde-3-phosphate dehydrogenase/0.540
1znqNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.539
3k2bNADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic1.2.1.130.539
3cmcNADGlyceraldehyde-3-phosphate dehydrogenase/0.536
3hjaNADGlyceraldehyde-3-phosphate dehydrogenase/0.529
1a7kNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.527
1qxsNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.524
3dmtNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.517
1gypNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.511
3b20NADGlyceraldehyde-3-phosphate dehydrogenase/0.509
2pkrNDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic1.2.1.130.503
3idsNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.493
1u8fNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.492
1nq5NADGlyceraldehyde-3-phosphate dehydrogenase/0.484
2vyvNADGlyceraldehyde-3-phosphate dehydrogenase A/0.483
1nboNADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic1.2.1.130.464
1rm4NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic1.2.1.130.460
1nqoNADGlyceraldehyde-3-phosphate dehydrogenase/0.459
1rm3NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic1.2.1.130.453
4boyNADGlyceraldehyde-3-phosphate dehydrogenase/0.448
1dbvNADGlyceraldehyde-3-phosphate dehydrogenase/0.446
3gnqNADGlyceraldehyde-3-phosphate dehydrogenase/0.441