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 |
|---|---|---|---|
| 2dv7 | SAH | Diphthine synthase |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 2dv7 | SAH | Diphthine synthase | / | 1.000 | |
| 2ejk | SAH | Diphthine synthase | / | 0.856 | |
| 2eni | SAH | Diphthine synthase | / | 0.852 | |
| 2dxv | SAH | Diphthine synthase | / | 0.845 | |
| 2dxw | SAH | Diphthine synthase | / | 0.828 | |
| 2dsg | SAH | Diphthine synthase | / | 0.825 | |
| 2ed5 | SAH | Diphthine synthase | / | 0.816 | |
| 2emr | SAH | Diphthine synthase | / | 0.800 | |
| 2dv4 | SAH | Diphthine synthase | / | 0.795 | |
| 2el0 | SAH | Diphthine synthase | / | 0.792 | |
| 2egs | SAH | Diphthine synthase | / | 0.788 | |
| 2eh5 | SAH | Diphthine synthase | / | 0.782 | |
| 2p5c | SAH | Diphthine synthase | / | 0.780 | |
| 2emu | SAH | Diphthine synthase | / | 0.776 | |
| 2pcm | SAH | Diphthine synthase | / | 0.774 | |
| 2dsi | SAH | Diphthine synthase | / | 0.765 | |
| 2e8s | SAH | Diphthine synthase | / | 0.764 | |
| 2e8q | SAH | Diphthine synthase | / | 0.758 | |
| 2p6d | SAH | Diphthine synthase | / | 0.755 | |
| 2ehl | SAH | Diphthine synthase | / | 0.754 | |
| 2e7r | SAH | Diphthine synthase | / | 0.750 | |
| 1wng | SAH | Diphthine synthase | / | 0.735 | |
| 2p5f | SAH | Diphthine synthase | / | 0.735 | |
| 2dxx | SAH | Diphthine synthase | / | 0.730 | |
| 2egl | SAH | Diphthine synthase | / | 0.727 | |
| 2pb4 | SAH | Diphthine synthase | / | 0.726 | |
| 2eka | SAH | Diphthine synthase | / | 0.725 | |
| 2e8h | SAH | Diphthine synthase | / | 0.723 | |
| 2p6i | SAH | Diphthine synthase | / | 0.721 | |
| 2ek7 | SAH | Diphthine synthase | / | 0.712 | |
| 2hut | SAH | Diphthine synthase | / | 0.708 | |
| 2pb5 | SAH | Diphthine synthase | / | 0.707 | |
| 2hux | SAH | Diphthine synthase | / | 0.706 | |
| 2p2x | SAH | Diphthine synthase | / | 0.706 | |
| 2pch | SAH | Diphthine synthase | / | 0.704 | |
| 2dv5 | SAH | Diphthine synthase | / | 0.703 | |
| 2eeq | SAH | Diphthine synthase | / | 0.702 | |
| 2pcg | SAH | Diphthine synthase | / | 0.700 | |
| 2pck | SAH | Diphthine synthase | / | 0.698 | |
| 2egb | SAH | Diphthine synthase | / | 0.697 | |
| 2dv3 | SAH | Diphthine synthase | / | 0.695 | |
| 2ele | SAH | Diphthine synthase | / | 0.690 | |
| 2en5 | SAH | Diphthine synthase | / | 0.685 | |
| 2eh2 | SAH | Diphthine synthase | / | 0.683 | |
| 2ek3 | SAH | Diphthine synthase | / | 0.678 | |
| 2owk | SAH | Diphthine synthase | / | 0.678 | |
| 2owu | SAH | Diphthine synthase | / | 0.674 | |
| 2e08 | SAH | Diphthine synthase | / | 0.673 | |
| 2e17 | SAH | Diphthine synthase | / | 0.673 | |
| 2pb6 | SAH | Diphthine synthase | / | 0.670 | |
| 2dek | SAH | Diphthine synthase | / | 0.666 | |
| 2z6r | SAH | Diphthine synthase | / | 0.665 | |
| 2owg | SAH | Diphthine synthase | / | 0.660 | |
| 1vce | SAH | Diphthine synthase | / | 0.658 | |
| 2eh4 | SAH | Diphthine synthase | / | 0.657 | |
| 2p9d | SAH | Diphthine synthase | / | 0.657 | |
| 2hr8 | SAH | Diphthine synthase | / | 0.654 | |
| 2ek2 | SAH | Diphthine synthase | / | 0.649 | |
| 2p6l | SAH | Diphthine synthase | / | 0.647 | |
| 2huv | SAH | Diphthine synthase | / | 0.645 | |
| 2e15 | SAH | Diphthine synthase | / | 0.644 | |
| 2e16 | SAH | Diphthine synthase | / | 0.644 | |
| 2pca | SAH | Diphthine synthase | / | 0.642 | |
| 2ejj | SAH | Diphthine synthase | / | 0.640 | |
| 2eld | SAH | Diphthine synthase | / | 0.639 | |
| 2e8r | SAH | Diphthine synthase | / | 0.637 | |
| 2e07 | SAH | Diphthine synthase | / | 0.633 | |
| 2owv | SAH | Diphthine synthase | / | 0.629 | |
| 2e4n | SAH | Diphthine synthase | / | 0.620 | |
| 2pci | SAH | Diphthine synthase | / | 0.619 | |
| 2el3 | SAH | Diphthine synthase | / | 0.596 | |
| 2huq | SAH | Diphthine synthase | / | 0.595 | |
| 2dsh | SAH | Diphthine synthase | / | 0.589 | |
| 2ek4 | SAH | Diphthine synthase | / | 0.587 | |
| 2ed3 | SAH | Diphthine synthase | / | 0.555 | |
| 2owf | SAH | Diphthine synthase | / | 0.552 | |
| 2ejz | SAH | Diphthine synthase | / | 0.530 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.476 | |
| 2znn | S44 | Peroxisome proliferator-activated receptor alpha | / | 0.473 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.472 | |
| 2p6k | SAH | Diphthine synthase | / | 0.471 | |
| 4jnk | ZHK | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.466 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.457 | |
| 2wyv | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.457 | |
| 3fwi | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.457 | |
| 2ztv | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.455 | |
| 3ox4 | NAD | Alcohol dehydrogenase 2 | 1.1.1.1 | 0.454 | |
| 4iql | FMN | Enoyl-(Acyl-carrier-protein) reductase II | / | 0.454 | |
| 3slk | NDP | Polyketide synthase extender module 2 | / | 0.453 | |
| 2psw | COA | N-alpha-acetyltransferase 50 | / | 0.452 | |
| 1g63 | FMN | Epidermin decarboxylase | 4.1.1 | 0.451 | |
| 1noo | CAH | Camphor 5-monooxygenase | 1.14.15.1 | 0.451 | |
| 1t86 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.451 | |
| 2gjn | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.451 | |
| 3m1v | COM | Methyl-coenzyme M reductase I subunit alpha | 2.8.4.1 | 0.450 | |
| 3m1v | COM | Methyl-coenzyme M reductase I subunit beta | 2.8.4.1 | 0.450 | |
| 5d3q | GDP | Dynamin-1 | 3.6.5.5 | 0.450 | |
| 1bdl | IM1 | Gag-Pol polyprotein | 3.4.23.16 | 0.448 | |
| 3zh8 | C58 | Protein kinase C iota type | 2.7.11.13 | 0.448 | |
| 1jip | KTN | 6-deoxyerythronolide B hydroxylase | / | 0.447 | |
| 1re7 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.447 | |
| 1t88 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.447 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.446 | |
| 2a94 | AP0 | L-lactate dehydrogenase | 1.1.1.27 | 0.446 | |
| 2y3s | TIR | TamL | / | 0.446 | |
| 3dhe | AND | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.446 | |
| 3up5 | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.446 | |
| 1dir | NAD | Dihydropteridine reductase | 1.5.1.34 | 0.445 | |
| 1tqf | 32P | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 2q4b | NAP | Uncharacterized protein At5g02240 | / | 0.445 | |
| 3w6h | AZM | Carbonic anhydrase 1 | 4.2.1.1 | 0.445 | |
| 4irn | FAD | AnaB | / | 0.445 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.444 | |
| 3h6v | NS6 | Glutamate receptor 2 | / | 0.444 | |
| 4i8z | G08 | Gag-Pol polyprotein | 3.4.23.16 | 0.444 | |
| 4trn | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.444 | |
| 4wud | ANP | DNA gyrase subunit B | / | 0.444 | |
| 3gw9 | VNI | Lanosterol 14-alpha-demethylase | / | 0.443 | |
| 4a8v | 2AN | Major pollen allergen Bet v 1-J | / | 0.443 | |
| 1bmf | ANP | ATP synthase subunit alpha, mitochondrial | / | 0.442 | |
| 1bmf | ANP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.442 | |
| 2b37 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.442 | |
| 2giv | ACO | Histone acetyltransferase KAT8 | / | 0.442 | |
| 3wrh | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.442 | |
| 1vik | BAY | Gag-Pol polyprotein | / | 0.441 | |
| 3kji | ADP | CO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC | / | 0.441 | |
| 3vqs | JT1 | Genome polyprotein | / | 0.441 | |
| 3wfj | NAD | 2-dehydropantoate 2-reductase | / | 0.441 | |
| 1kkq | 471 | Peroxisome proliferator-activated receptor alpha | / | 0.440 | |
| 1phe | PIY | Camphor 5-monooxygenase | 1.14.15.1 | 0.440 | |
| 1xs7 | MMI | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 2ifa | FMN | Uncharacterized protein | / | 0.440 | |
| 2z54 | AB1 | Gag-Pol polyprotein | 3.4.23.16 | 0.440 | |
| 3ig6 | 438 | Urokinase-type plasminogen activator | 3.4.21.73 | 0.440 | |
| 3tne | RIT | Candidapepsin-1 | 3.4.23.24 | 0.440 | |
| 4ewn | 0VR | Imidazole glycerol phosphate synthase subunit HisF | 4.1.3 | 0.440 |