sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
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
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 2dek | SAH | Diphthine synthase |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 2dek | SAH | Diphthine synthase | / | 1.000 | |
| 2e8h | SAH | Diphthine synthase | / | 0.838 | |
| 2p6l | SAH | Diphthine synthase | / | 0.833 | |
| 2e16 | SAH | Diphthine synthase | / | 0.828 | |
| 2owv | SAH | Diphthine synthase | / | 0.818 | |
| 2egl | SAH | Diphthine synthase | / | 0.769 | |
| 2dsg | SAH | Diphthine synthase | / | 0.744 | |
| 2e08 | SAH | Diphthine synthase | / | 0.724 | |
| 2ek2 | SAH | Diphthine synthase | / | 0.722 | |
| 2e17 | SAH | Diphthine synthase | / | 0.714 | |
| 2en5 | SAH | Diphthine synthase | / | 0.713 | |
| 2pb6 | SAH | Diphthine synthase | / | 0.713 | |
| 2e15 | SAH | Diphthine synthase | / | 0.711 | |
| 2ek7 | SAH | Diphthine synthase | / | 0.705 | |
| 2owu | SAH | Diphthine synthase | / | 0.705 | |
| 2z6r | SAH | Diphthine synthase | / | 0.701 | |
| 2emr | SAH | Diphthine synthase | / | 0.697 | |
| 2eh5 | SAH | Diphthine synthase | / | 0.695 | |
| 2emu | SAH | Diphthine synthase | / | 0.693 | |
| 2e8q | SAH | Diphthine synthase | / | 0.690 | |
| 1vce | SAH | Diphthine synthase | / | 0.684 | |
| 2dxv | SAH | Diphthine synthase | / | 0.683 | |
| 2hux | SAH | Diphthine synthase | / | 0.680 | |
| 2dv4 | SAH | Diphthine synthase | / | 0.677 | |
| 2e4n | SAH | Diphthine synthase | / | 0.676 | |
| 2dv7 | SAH | Diphthine synthase | / | 0.673 | |
| 2dxw | SAH | Diphthine synthase | / | 0.670 | |
| 2egb | SAH | Diphthine synthase | / | 0.668 | |
| 2eni | SAH | Diphthine synthase | / | 0.668 | |
| 2e07 | SAH | Diphthine synthase | / | 0.666 | |
| 2pb4 | SAH | Diphthine synthase | / | 0.666 | |
| 1wng | SAH | Diphthine synthase | / | 0.664 | |
| 2ehl | SAH | Diphthine synthase | / | 0.664 | |
| 2hr8 | SAH | Diphthine synthase | / | 0.661 | |
| 2ejj | SAH | Diphthine synthase | / | 0.660 | |
| 2eeq | SAH | Diphthine synthase | / | 0.652 | |
| 2eh2 | SAH | Diphthine synthase | / | 0.650 | |
| 2eld | SAH | Diphthine synthase | / | 0.650 | |
| 2dv3 | SAH | Diphthine synthase | / | 0.649 | |
| 2p6i | SAH | Diphthine synthase | / | 0.648 | |
| 2pcm | SAH | Diphthine synthase | / | 0.647 | |
| 2pci | SAH | Diphthine synthase | / | 0.644 | |
| 2e8s | SAH | Diphthine synthase | / | 0.638 | |
| 2egs | SAH | Diphthine synthase | / | 0.638 | |
| 2hut | SAH | Diphthine synthase | / | 0.635 | |
| 2p6d | SAH | Diphthine synthase | / | 0.635 | |
| 2owk | SAH | Diphthine synthase | / | 0.634 | |
| 2ek3 | SAH | Diphthine synthase | / | 0.632 | |
| 2ek4 | SAH | Diphthine synthase | / | 0.631 | |
| 2huq | SAH | Diphthine synthase | / | 0.622 | |
| 2ed3 | SAH | Diphthine synthase | / | 0.621 | |
| 2pch | SAH | Diphthine synthase | / | 0.617 | |
| 2el3 | SAH | Diphthine synthase | / | 0.615 | |
| 2ejk | SAH | Diphthine synthase | / | 0.612 | |
| 2p2x | SAH | Diphthine synthase | / | 0.604 | |
| 2el0 | SAH | Diphthine synthase | / | 0.603 | |
| 2ele | SAH | Diphthine synthase | / | 0.603 | |
| 2dsh | SAH | Diphthine synthase | / | 0.597 | |
| 2eh4 | SAH | Diphthine synthase | / | 0.593 | |
| 2eka | SAH | Diphthine synthase | / | 0.593 | |
| 2ed5 | SAH | Diphthine synthase | / | 0.585 | |
| 2p5f | SAH | Diphthine synthase | / | 0.585 | |
| 2huv | SAH | Diphthine synthase | / | 0.581 | |
| 2p6k | SAH | Diphthine synthase | / | 0.578 | |
| 2owf | SAH | Diphthine synthase | / | 0.573 | |
| 2pck | SAH | Diphthine synthase | / | 0.570 | |
| 2e8r | SAH | Diphthine synthase | / | 0.569 | |
| 2pca | SAH | Diphthine synthase | / | 0.556 | |
| 2p5c | SAH | Diphthine synthase | / | 0.554 | |
| 2dv5 | SAH | Diphthine synthase | / | 0.553 | |
| 2pcg | SAH | Diphthine synthase | / | 0.553 | |
| 2dsi | SAH | Diphthine synthase | / | 0.549 | |
| 2p9d | SAH | Diphthine synthase | / | 0.544 | |
| 2e7r | SAH | Diphthine synthase | / | 0.543 | |
| 2dxx | SAH | Diphthine synthase | / | 0.535 | |
| 2ejz | SAH | Diphthine synthase | / | 0.533 | |
| 2pb5 | SAH | Diphthine synthase | / | 0.516 | |
| 2owg | SAH | Diphthine synthase | / | 0.506 | |
| 2ztv | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.461 | |
| 2qs3 | UBE | Glutamate receptor ionotropic, kainate 1 | / | 0.458 | |
| 2a94 | AP0 | L-lactate dehydrogenase | 1.1.1.27 | 0.457 | |
| 5d3q | GDP | Dynamin-1 | 3.6.5.5 | 0.456 | |
| 2gjn | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.452 | |
| 2iqg | F2I | Beta-secretase 1 | 3.4.23.46 | 0.452 | |
| 2ojt | UBA | Glutamate receptor ionotropic, kainate 1 | / | 0.449 | |
| 3tne | RIT | Candidapepsin-1 | 3.4.23.24 | 0.448 | |
| 4emd | C5P | 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase | / | 0.448 | |
| 4nbt | NAD | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.448 | |
| 3lzs | 017 | Gag-Pol polyprotein | 3.4.23.16 | 0.447 | |
| 3ut5 | LOC | Tubulin beta chain | / | 0.447 | |
| 5dp2 | NAP | CurF | / | 0.447 | |
| 3q9b | B3N | Acetylpolyamine amidohydrolase | / | 0.446 | |
| 2wyv | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.444 | |
| 2x8i | X8I | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.444 | |
| 4cvm | ANP | UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase | / | 0.444 | |
| 3ieu | GDP | GTPase Era | / | 0.443 | |
| 4anx | 534 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.443 | |
| 4gdy | 0X1 | Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial | 2.6.1.39 | 0.443 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.442 | |
| 3gjw | GJW | Poly [ADP-ribose] polymerase 1 | 2.4.2.30 | 0.442 | |
| 3up5 | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.442 | |
| 3vf3 | 0GS | Beta-secretase 1 | 3.4.23.46 | 0.442 | |
| 4wri | OKA | Okadaic acid binding protein 2-alpha | / | 0.442 | |
| 2ifa | FMN | Uncharacterized protein | / | 0.441 | |
| 2qbm | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.441 | |
| 3r6s | CMP | CRP-like cAMP-activated global transcriptional regulator | / | 0.441 | |
| 3ndc | SAH | Precorrin-4 C(11)-methyltransferase | 2.1.1.133 | 0.440 | |
| 3r9u | FAD | Thioredoxin reductase | / | 0.440 |