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 |
|---|---|---|---|
| 2eh5 | SAH | Diphthine synthase |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 2eh5 | SAH | Diphthine synthase | / | 1.000 | |
| 2emr | SAH | Diphthine synthase | / | 0.885 | |
| 2emu | SAH | Diphthine synthase | / | 0.854 | |
| 2dxv | SAH | Diphthine synthase | / | 0.837 | |
| 2ehl | SAH | Diphthine synthase | / | 0.835 | |
| 2pcm | SAH | Diphthine synthase | / | 0.826 | |
| 2e8s | SAH | Diphthine synthase | / | 0.823 | |
| 2dxw | SAH | Diphthine synthase | / | 0.819 | |
| 2ek7 | SAH | Diphthine synthase | / | 0.810 | |
| 2eni | SAH | Diphthine synthase | / | 0.810 | |
| 2p6d | SAH | Diphthine synthase | / | 0.801 | |
| 2dv7 | SAH | Diphthine synthase | / | 0.782 | |
| 2owk | SAH | Diphthine synthase | / | 0.777 | |
| 2e8q | SAH | Diphthine synthase | / | 0.769 | |
| 2dsg | SAH | Diphthine synthase | / | 0.768 | |
| 2eka | SAH | Diphthine synthase | / | 0.767 | |
| 2eh2 | SAH | Diphthine synthase | / | 0.765 | |
| 2ele | SAH | Diphthine synthase | / | 0.764 | |
| 2ejk | SAH | Diphthine synthase | / | 0.756 | |
| 2egl | SAH | Diphthine synthase | / | 0.750 | |
| 2pb4 | SAH | Diphthine synthase | / | 0.738 | |
| 2pb6 | SAH | Diphthine synthase | / | 0.735 | |
| 2ek2 | SAH | Diphthine synthase | / | 0.728 | |
| 2en5 | SAH | Diphthine synthase | / | 0.726 | |
| 2hux | SAH | Diphthine synthase | / | 0.715 | |
| 2egs | SAH | Diphthine synthase | / | 0.714 | |
| 2dv4 | SAH | Diphthine synthase | / | 0.710 | |
| 2e8r | SAH | Diphthine synthase | / | 0.709 | |
| 2hut | SAH | Diphthine synthase | / | 0.708 | |
| 2e16 | SAH | Diphthine synthase | / | 0.706 | |
| 2pcg | SAH | Diphthine synthase | / | 0.704 | |
| 2el0 | SAH | Diphthine synthase | / | 0.699 | |
| 2p5c | SAH | Diphthine synthase | / | 0.697 | |
| 2e8h | SAH | Diphthine synthase | / | 0.693 | |
| 2p6k | SAH | Diphthine synthase | / | 0.691 | |
| 2ed5 | SAH | Diphthine synthase | / | 0.690 | |
| 2egb | SAH | Diphthine synthase | / | 0.689 | |
| 2e7r | SAH | Diphthine synthase | / | 0.686 | |
| 2owv | SAH | Diphthine synthase | / | 0.685 | |
| 2dek | SAH | Diphthine synthase | / | 0.684 | |
| 2dv3 | SAH | Diphthine synthase | / | 0.676 | |
| 2eld | SAH | Diphthine synthase | / | 0.673 | |
| 2e17 | SAH | Diphthine synthase | / | 0.672 | |
| 2e4n | SAH | Diphthine synthase | / | 0.672 | |
| 2e15 | SAH | Diphthine synthase | / | 0.667 | |
| 2pck | SAH | Diphthine synthase | / | 0.667 | |
| 2ek3 | SAH | Diphthine synthase | / | 0.664 | |
| 1wng | SAH | Diphthine synthase | / | 0.663 | |
| 2pch | SAH | Diphthine synthase | / | 0.663 | |
| 1vce | SAH | Diphthine synthase | / | 0.661 | |
| 2p6l | SAH | Diphthine synthase | / | 0.659 | |
| 2p5f | SAH | Diphthine synthase | / | 0.657 | |
| 2p2x | SAH | Diphthine synthase | / | 0.652 | |
| 2e08 | SAH | Diphthine synthase | / | 0.649 | |
| 2dxx | SAH | Diphthine synthase | / | 0.648 | |
| 2z6r | SAH | Diphthine synthase | / | 0.648 | |
| 2hr8 | SAH | Diphthine synthase | / | 0.646 | |
| 2el3 | SAH | Diphthine synthase | / | 0.645 | |
| 2ek4 | SAH | Diphthine synthase | / | 0.642 | |
| 2dv5 | SAH | Diphthine synthase | / | 0.638 | |
| 2huv | SAH | Diphthine synthase | / | 0.635 | |
| 2dsi | SAH | Diphthine synthase | / | 0.632 | |
| 2p6i | SAH | Diphthine synthase | / | 0.631 | |
| 2pb5 | SAH | Diphthine synthase | / | 0.631 | |
| 2pci | SAH | Diphthine synthase | / | 0.622 | |
| 2owg | SAH | Diphthine synthase | / | 0.615 | |
| 2pca | SAH | Diphthine synthase | / | 0.608 | |
| 2eeq | SAH | Diphthine synthase | / | 0.605 | |
| 2owu | SAH | Diphthine synthase | / | 0.600 | |
| 2p9d | SAH | Diphthine synthase | / | 0.598 | |
| 2eh4 | SAH | Diphthine synthase | / | 0.581 | |
| 2e07 | SAH | Diphthine synthase | / | 0.564 | |
| 2owf | SAH | Diphthine synthase | / | 0.558 | |
| 2ejj | SAH | Diphthine synthase | / | 0.549 | |
| 2huq | SAH | Diphthine synthase | / | 0.543 | |
| 2ejz | SAH | Diphthine synthase | / | 0.535 | |
| 2dsh | SAH | Diphthine synthase | / | 0.531 | |
| 2ed3 | SAH | Diphthine synthase | / | 0.512 | |
| 1g63 | FMN | Epidermin decarboxylase | 4.1.1 | 0.463 | |
| 3zh8 | C58 | Protein kinase C iota type | 2.7.11.13 | 0.461 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.457 | |
| 2qs3 | UBE | Glutamate receptor ionotropic, kainate 1 | / | 0.457 | |
| 4jnk | ZHK | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.457 | |
| 3ndc | SAH | Precorrin-4 C(11)-methyltransferase | 2.1.1.133 | 0.456 | |
| 2znn | S44 | Peroxisome proliferator-activated receptor alpha | / | 0.454 | |
| 3up5 | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.453 | |
| 3r6s | CMP | CRP-like cAMP-activated global transcriptional regulator | / | 0.451 | |
| 4irn | FAD | AnaB | / | 0.449 | |
| 2f4b | EHA | Peroxisome proliferator-activated receptor gamma | / | 0.448 | |
| 2he5 | NDP | Aldo-keto reductase family 1 member C21 | 1.1.1 | 0.448 | |
| 4nbw | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.448 | |
| 2e0n | SAH | Precorrin-2 C20-methyltransferase | / | 0.447 | |
| 2ojt | UBA | Glutamate receptor ionotropic, kainate 1 | / | 0.447 | |
| 2rhg | IGP | Tryptophan synthase alpha chain | / | 0.447 | |
| 4fn4 | NAD | Short chain dehydrogenase | / | 0.447 | |
| 3m1v | COM | Methyl-coenzyme M reductase I subunit alpha | 2.8.4.1 | 0.445 | |
| 3m1v | COM | Methyl-coenzyme M reductase I subunit beta | 2.8.4.1 | 0.445 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.445 | |
| 1kfb | IGP | Tryptophan synthase alpha chain | / | 0.444 | |
| 2q4b | NAP | Uncharacterized protein At5g02240 | / | 0.444 | |
| 2x8i | X8I | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.444 | |
| 3tne | RIT | Candidapepsin-1 | 3.4.23.24 | 0.444 | |
| 4lrz | ADP | PEP-dependent dihydroxyacetone kinase, ADP-binding subunit DhaL | 2.7 | 0.444 | |
| 4oug | LP5 | Peptidoglycan recognition protein 1 | / | 0.444 | |
| 4z61 | ILE_THR_GLN_TYS_TYS | Phytosulfokine receptor 1 | 2.7.11.1 | 0.443 | |
| 5a0y | COM | Methyl-coenzyme M reductase I subunit alpha | 2.8.4.1 | 0.443 | |
| 5a0y | COM | Methyl-coenzyme M reductase I subunit beta | 2.8.4.1 | 0.443 | |
| 1t2c | NAI | L-lactate dehydrogenase | 1.1.1.27 | 0.442 | |
| 3ai3 | NDP | NADPH-sorbose reductase | / | 0.442 | |
| 3q43 | D66 | M1 family aminopeptidase | 3.4.11 | 0.442 | |
| 1j1z | ATP | Argininosuccinate synthase | / | 0.441 | |
| 1qiq | ACC | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 2wed | PP6 | Penicillopepsin-1 | 3.4.23.20 | 0.441 | |
| 3dga | NDP | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.441 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.441 | |
| 4epl | JAI | Jasmonic acid-amido synthetase JAR1 | 6.3.2 | 0.441 | |
| 2g8y | NAD | Hydroxycarboxylate dehydrogenase B | / | 0.440 | |
| 2ifa | FMN | Uncharacterized protein | / | 0.440 | |
| 2ztv | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.440 |