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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
3ksdNADGlyceraldehyde-3-phosphate dehydrogenase 1

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3ksdNADGlyceraldehyde-3-phosphate dehydrogenase 1/1.000
3l4sNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.626
3lvfNADGlyceraldehyde-3-phosphate dehydrogenase 1/0.618
3cifNADGlyceraldehyde-3-phosphate dehydrogenase/0.571
3e5rNADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic1.2.1.120.568
4p8rNADGlyceraldehyde-3-phosphate dehydrogenase/0.564
4k9dNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.563
1nptNADGlyceraldehyde-3-phosphate dehydrogenase/0.560
4o59NADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.558
1nq5NADGlyceraldehyde-3-phosphate dehydrogenase/0.548
1ml3NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.545
1a7kNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.540
3dbvNADGlyceraldehyde-3-phosphate dehydrogenase/0.539
3docNADGlyceraldehyde-3-phosphate dehydrogenase/0.536
1gypNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.535
1znqNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.534
3cpsNADGlyceraldehyde-3-phosphate dehydrogenase/0.534
3k2bNADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic1.2.1.130.532
1nqaNADGlyceraldehyde-3-phosphate dehydrogenase/0.531
1nqoNADGlyceraldehyde-3-phosphate dehydrogenase/0.530
1qxsNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.530
1gd1NADGlyceraldehyde-3-phosphate dehydrogenase/0.528
2vynNADGlyceraldehyde-3-phosphate dehydrogenase A/0.527
3cmcNADGlyceraldehyde-3-phosphate dehydrogenase/0.521
3dmtNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.518
3hjaNADGlyceraldehyde-3-phosphate dehydrogenase/0.515
2pkrNDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic1.2.1.130.505
3b20NADGlyceraldehyde-3-phosphate dehydrogenase/0.501
3idsNADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal1.2.1.120.496
1cerNADGlyceraldehyde-3-phosphate dehydrogenase/0.485
1u8fNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.472
2vyvNADGlyceraldehyde-3-phosphate dehydrogenase A/0.471
3zdfNADGlyceraldehyde-3-phosphate dehydrogenase/0.459
1nboNADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic1.2.1.130.458
3qv1NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic1.2.1.130.457
2a92NAIL-lactate dehydrogenase/0.455
4fw8NAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.451
4nd2A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.446
2g82NADGlyceraldehyde-3-phosphate dehydrogenase/0.443