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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites 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
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
3dbvNADGlyceraldehyde-3-phosphate dehydrogenase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3dbvNADGlyceraldehyde-3-phosphate dehydrogenase/1.000
3k2bNADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic1.2.1.130.602
3hjaNADGlyceraldehyde-3-phosphate dehydrogenase/0.569
3cmcNADGlyceraldehyde-3-phosphate dehydrogenase/0.562
1gd1NADGlyceraldehyde-3-phosphate dehydrogenase/0.559
1nptNADGlyceraldehyde-3-phosphate dehydrogenase/0.554
3cifNADGlyceraldehyde-3-phosphate dehydrogenase/0.552
3b20NADGlyceraldehyde-3-phosphate dehydrogenase/0.550
1nqaNADGlyceraldehyde-3-phosphate dehydrogenase/0.544
3ksdNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.544
1gypNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.543
1ml3NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.540
1znqNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.535
3lvfNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.535
1a7kNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.528
2vynNADGlyceraldehyde-3-phosphate dehydrogenase A/0.526
3e5rNADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic1.2.1.120.524
1nq5NADGlyceraldehyde-3-phosphate dehydrogenase/0.521
4k9dNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.521
3cpsNADGlyceraldehyde-3-phosphate dehydrogenase/0.520
2pkrNDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic1.2.1.130.518
3l4sNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.516
4p8rNADGlyceraldehyde-3-phosphate dehydrogenase/0.515
1qxsNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.510
1nqoNADGlyceraldehyde-3-phosphate dehydrogenase/0.501
2vyvNADGlyceraldehyde-3-phosphate dehydrogenase A/0.498
4o59NADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.495
3docNADGlyceraldehyde-3-phosphate dehydrogenase/0.489
3dmtNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.487
3qv1NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic1.2.1.130.478
1u8fNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.468
1cerNADGlyceraldehyde-3-phosphate dehydrogenase/0.464
2g82NADGlyceraldehyde-3-phosphate dehydrogenase/0.458
1nboNADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic1.2.1.130.444
3idsNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.444