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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
1bmdNADMalate dehydrogenase

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
1bmdNADMalate dehydrogenase/1.000
1wzeNADMalate dehydrogenase/0.692
1bdmNAXMalate dehydrogenase/0.635
1wziNDPMalate dehydrogenase/0.588
2cvqNDPMalate dehydrogenase/0.584
1b8vNADMalate dehydrogenase/0.559
1b8uNADMalate dehydrogenase/0.540
1y7tNDPMalate dehydrogenase/0.533
4uunNAIL-lactate dehydrogenase/0.504
4l4sNAIL-lactate dehydrogenase A chain1.1.1.270.486
2a92NAIL-lactate dehydrogenase/0.484
1ur5NADMalate dehydrogenase/0.478
4rlsNAIL-lactate dehydrogenase A chain1.1.1.270.477
1o0sNAINAD-dependent malic enzyme, mitochondrial1.1.1.380.471
2aa3AP0L-lactate dehydrogenase/0.471
4i1iNADMalate dehydrogenase/0.466
4i8x6P3L-lactate dehydrogenase A chain1.1.1.270.465
2ldbNADL-lactate dehydrogenase1.1.1.270.463
4mdhNADMalate dehydrogenase, cytoplasmic1.1.1.370.462
4i9n1E5L-lactate dehydrogenase A chain1.1.1.270.456
1hygNAPL-2-hydroxycarboxylate dehydrogenase (NAD(P)(+))/0.453
1llqNADNAD-dependent malic enzyme, mitochondrial1.1.1.380.449
4i9h1E4L-lactate dehydrogenase A chain1.1.1.270.448
3ggoNAIPrephenate dehydrogenase/0.446
3d4pNADL-lactate dehydrogenase 11.1.1.270.443
3wswNADL-lactate dehydrogenase/0.443
2gjlFMNNitronate monooxygenase1.13.12.160.442
4hxyNDPPlm1/0.442
1guyNADMalate dehydrogenase/0.440