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 |
|---|---|---|---|
| 1vce | SAH | Diphthine synthase |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 1vce | SAH | Diphthine synthase | / | 1.000 | |
| 2e08 | SAH | Diphthine synthase | / | 0.677 | |
| 2e4n | SAH | Diphthine synthase | / | 0.675 | |
| 2e16 | SAH | Diphthine synthase | / | 0.670 | |
| 2dxw | SAH | Diphthine synthase | / | 0.667 | |
| 2e7r | SAH | Diphthine synthase | / | 0.667 | |
| 2ek7 | SAH | Diphthine synthase | / | 0.665 | |
| 2dek | SAH | Diphthine synthase | / | 0.663 | |
| 2dxv | SAH | Diphthine synthase | / | 0.663 | |
| 2e07 | SAH | Diphthine synthase | / | 0.663 | |
| 2emu | SAH | Diphthine synthase | / | 0.660 | |
| 2eni | SAH | Diphthine synthase | / | 0.656 | |
| 2ed5 | SAH | Diphthine synthase | / | 0.655 | |
| 2egb | SAH | Diphthine synthase | / | 0.655 | |
| 2emr | SAH | Diphthine synthase | / | 0.655 | |
| 2pcg | SAH | Diphthine synthase | / | 0.655 | |
| 2eh5 | SAH | Diphthine synthase | / | 0.654 | |
| 2owu | SAH | Diphthine synthase | / | 0.654 | |
| 2p6d | SAH | Diphthine synthase | / | 0.652 | |
| 2ele | SAH | Diphthine synthase | / | 0.651 | |
| 2pb6 | SAH | Diphthine synthase | / | 0.650 | |
| 2hr8 | SAH | Diphthine synthase | / | 0.649 | |
| 2owv | SAH | Diphthine synthase | / | 0.649 | |
| 2e8h | SAH | Diphthine synthase | / | 0.648 | |
| 2egs | SAH | Diphthine synthase | / | 0.647 | |
| 2el0 | SAH | Diphthine synthase | / | 0.647 | |
| 2p6i | SAH | Diphthine synthase | / | 0.647 | |
| 2egl | SAH | Diphthine synthase | / | 0.646 | |
| 2eld | SAH | Diphthine synthase | / | 0.646 | |
| 2ehl | SAH | Diphthine synthase | / | 0.645 | |
| 2ek2 | SAH | Diphthine synthase | / | 0.645 | |
| 2el3 | SAH | Diphthine synthase | / | 0.645 | |
| 2dv7 | SAH | Diphthine synthase | / | 0.644 | |
| 2owg | SAH | Diphthine synthase | / | 0.644 | |
| 2dsg | SAH | Diphthine synthase | / | 0.643 | |
| 2dv3 | SAH | Diphthine synthase | / | 0.643 | |
| 2huv | SAH | Diphthine synthase | / | 0.640 | |
| 2dsh | SAH | Diphthine synthase | / | 0.639 | |
| 2huq | SAH | Diphthine synthase | / | 0.639 | |
| 2pck | SAH | Diphthine synthase | / | 0.639 | |
| 2p6l | SAH | Diphthine synthase | / | 0.638 | |
| 2p9d | SAH | Diphthine synthase | / | 0.638 | |
| 2dv4 | SAH | Diphthine synthase | / | 0.636 | |
| 2e8q | SAH | Diphthine synthase | / | 0.636 | |
| 2eh4 | SAH | Diphthine synthase | / | 0.636 | |
| 2owk | SAH | Diphthine synthase | / | 0.636 | |
| 2p6k | SAH | Diphthine synthase | / | 0.636 | |
| 2pb4 | SAH | Diphthine synthase | / | 0.636 | |
| 2z6r | SAH | Diphthine synthase | / | 0.636 | |
| 2e15 | SAH | Diphthine synthase | / | 0.635 | |
| 2p5c | SAH | Diphthine synthase | / | 0.635 | |
| 2p5f | SAH | Diphthine synthase | / | 0.635 | |
| 2eeq | SAH | Diphthine synthase | / | 0.634 | |
| 1wng | SAH | Diphthine synthase | / | 0.632 | |
| 2eh2 | SAH | Diphthine synthase | / | 0.632 | |
| 2ejk | SAH | Diphthine synthase | / | 0.632 | |
| 2e8r | SAH | Diphthine synthase | / | 0.631 | |
| 2en5 | SAH | Diphthine synthase | / | 0.631 | |
| 2p2x | SAH | Diphthine synthase | / | 0.631 | |
| 2pca | SAH | Diphthine synthase | / | 0.630 | |
| 2ejj | SAH | Diphthine synthase | / | 0.629 | |
| 2dxx | SAH | Diphthine synthase | / | 0.628 | |
| 2e17 | SAH | Diphthine synthase | / | 0.628 | |
| 2dv5 | SAH | Diphthine synthase | / | 0.626 | |
| 2dsi | SAH | Diphthine synthase | / | 0.625 | |
| 2pch | SAH | Diphthine synthase | / | 0.625 | |
| 2eka | SAH | Diphthine synthase | / | 0.624 | |
| 2pci | SAH | Diphthine synthase | / | 0.620 | |
| 2e8s | SAH | Diphthine synthase | / | 0.618 | |
| 2ek3 | SAH | Diphthine synthase | / | 0.618 | |
| 2hut | SAH | Diphthine synthase | / | 0.618 | |
| 2ek4 | SAH | Diphthine synthase | / | 0.617 | |
| 2hux | SAH | Diphthine synthase | / | 0.617 | |
| 2pcm | SAH | Diphthine synthase | / | 0.617 | |
| 2ed3 | SAH | Diphthine synthase | / | 0.609 | |
| 2pb5 | SAH | Diphthine synthase | / | 0.607 | |
| 2owf | SAH | Diphthine synthase | / | 0.600 | |
| 2ejz | SAH | Diphthine synthase | / | 0.563 | |
| 1bws | NDP | GDP-L-fucose synthase | / | 0.467 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.465 | |
| 2e0n | SAH | Precorrin-2 C20-methyltransferase | / | 0.464 | |
| 2ifa | FMN | Uncharacterized protein | / | 0.458 | |
| 2wyv | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.455 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.454 | |
| 3ig6 | 438 | Urokinase-type plasminogen activator | 3.4.21.73 | 0.453 | |
| 3iqh | TYR_ASP_ILE | Cysteine synthase | 2.5.1.47 | 0.452 | |
| 3m1v | COM | Methyl-coenzyme M reductase I subunit alpha | 2.8.4.1 | 0.452 | |
| 3m1v | COM | Methyl-coenzyme M reductase I subunit beta | 2.8.4.1 | 0.452 | |
| 2y04 | 68H | Beta-1 adrenergic receptor | / | 0.451 | |
| 3m30 | COM | Methyl-coenzyme M reductase I subunit alpha | 2.8.4.1 | 0.448 | |
| 3m30 | COM | Methyl-coenzyme M reductase I subunit beta | 2.8.4.1 | 0.448 | |
| 3tne | RIT | Candidapepsin-1 | 3.4.23.24 | 0.448 | |
| 3w5h | FAD | NADH-cytochrome b5 reductase 3 | 1.6.2.2 | 0.448 | |
| 2g8y | NAD | Hydroxycarboxylate dehydrogenase B | / | 0.447 | |
| 2w06 | FRV | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.447 | |
| 3qgf | 46F | Genome polyprotein | 2.7.7.48 | 0.447 | |
| 3gw9 | VNI | Lanosterol 14-alpha-demethylase | / | 0.446 | |
| 2q4b | NAP | Uncharacterized protein At5g02240 | / | 0.445 | |
| 2ahr | NAP | Pyrroline-5-carboxylate reductase | / | 0.444 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.444 | |
| 4g7g | VFV | Lanosterol 14-alpha-demethylase | / | 0.444 | |
| 1g1a | NAD | dTDP-glucose 4,6-dehydratase | / | 0.443 | |
| 2rh9 | IGP | Tryptophan synthase alpha chain | / | 0.441 | |
| 3a3g | DLZ | Lumazine protein | / | 0.441 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.441 | |
| 3slk | NDP | Polyketide synthase extender module 2 | / | 0.441 | |
| 4l7f | 1V5 | Mitogen-activated protein kinase 8 | 2.7.11.24 | 0.441 | |
| 4z61 | ILE_THR_GLN_TYS_TYS | Phytosulfokine receptor 1 | 2.7.11.1 | 0.441 | |
| 1xe6 | 5FP | Plasmepsin-2 | 3.4.23.39 | 0.440 | |
| 3ieu | GDP | GTPase Era | / | 0.440 | |
| 3q43 | D66 | M1 family aminopeptidase | 3.4.11 | 0.440 |