sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
Binding Sites 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
Binding Sites are considered as similar when the similarity value is greater than 0.44
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 2wo8 | 077 | Macrophage metalloelastase | 3.4.24.65 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2wo8 | 077 | Macrophage metalloelastase | 3.4.24.65 | 1.000 | |
| 3ljg | EEF | Macrophage metalloelastase | 3.4.24.65 | 0.649 | |
| 1utt | CP8 | Macrophage metalloelastase | 3.4.24.65 | 0.648 | |
| 2ovx | 4MR | Matrix metalloproteinase-9 | 3.4.24.35 | 0.595 | |
| 2woa | 576 | Macrophage metalloelastase | 3.4.24.65 | 0.594 | |
| 2hu6 | 37A | Macrophage metalloelastase | 3.4.24.65 | 0.591 | |
| 4gr8 | R4C | Macrophage metalloelastase | 3.4.24.65 | 0.590 | |
| 3tsk | QEG | Macrophage metalloelastase | 3.4.24.65 | 0.585 | |
| 4guy | KLJ | Macrophage metalloelastase | 3.4.24.65 | 0.585 | |
| 4gr3 | R45 | Macrophage metalloelastase | 3.4.24.65 | 0.583 | |
| 1hy7 | MBS | Stromelysin-1 | 3.4.24.17 | 0.581 | |
| 1caq | DPS | Stromelysin-1 | 3.4.24.17 | 0.579 | |
| 3kry | 3KR | Collagenase 3 | 3.4.24 | 0.573 | |
| 4gql | R47 | Macrophage metalloelastase | 3.4.24.65 | 0.570 | |
| 2wo9 | 068 | Macrophage metalloelastase | 3.4.24.65 | 0.566 | |
| 3lil | EEA | Macrophage metalloelastase | 3.4.24.65 | 0.566 | |
| 3i7g | 732 | Collagenase 3 | 3.4.24 | 0.563 | |
| 1b8y | IN7 | Stromelysin-1 | 3.4.24.17 | 0.561 | |
| 3i7i | 518 | Collagenase 3 | 3.4.24 | 0.560 | |
| 4i03 | L88 | Macrophage metalloelastase | 3.4.24.65 | 0.560 | |
| 3lik | EEG | Macrophage metalloelastase | 3.4.24.65 | 0.556 | |
| 3o2x | 3O2 | Collagenase 3 | 3.4.24 | 0.554 | |
| 4a7b | 3W5 | Collagenase 3 | 3.4.24 | 0.554 | |
| 4a7b | 3W4 | Collagenase 3 | 3.4.24 | 0.554 | |
| 2ow0 | 6MR | Matrix metalloproteinase-9 | 3.4.24.35 | 0.551 | |
| 1ciz | DPS | Stromelysin-1 | 3.4.24.17 | 0.550 | |
| 2ow1 | 7MR | Matrix metalloproteinase-9 | 3.4.24.35 | 0.549 | |
| 1zvx | FIN | Neutrophil collagenase | 3.4.24.34 | 0.545 | |
| 3kec | 3KE | Collagenase 3 | 3.4.24 | 0.544 | |
| 3ts4 | EEG | Macrophage metalloelastase | 3.4.24.65 | 0.544 | |
| 1ztq | 033 | Collagenase 3 | 3.4.24 | 0.540 | |
| 1you | PFD | Collagenase 3 | 3.4.24 | 0.538 | |
| 4gr0 | R4B | Macrophage metalloelastase | 3.4.24.65 | 0.537 | |
| 1zs0 | EIN | Neutrophil collagenase | 3.4.24.34 | 0.536 | |
| 2d1n | FA4 | Collagenase 3 | 3.4.24 | 0.534 | |
| 2yig | 5EL | Collagenase 3 | 3.4.24 | 0.529 | |
| 1g4k | HQQ | Stromelysin-1 | 3.4.24.17 | 0.527 | |
| 2ovz | 5MR | Matrix metalloproteinase-9 | 3.4.24.35 | 0.526 | |
| 3kej | 3EJ | Collagenase 3 | 3.4.24 | 0.517 | |
| 1c8t | TR1 | Stromelysin-1 | 3.4.24.17 | 0.509 | |
| 4dpe | NGH | Stromelysin-1 | 3.4.24.17 | 0.508 | |
| 1xuc | PB3 | Collagenase 3 | 3.4.24 | 0.504 | |
| 2w0d | CGS | Macrophage metalloelastase | 3.4.24.65 | 0.504 | |
| 1g05 | BBH | Stromelysin-1 | 3.4.24.17 | 0.498 | |
| 1hv5 | RXP | Stromelysin-3 | 3.4.24 | 0.497 | |
| 1sln | INH | Stromelysin-1 | 3.4.24.17 | 0.496 | |
| 3d91 | REM | Renin | 3.4.23.15 | 0.495 | |
| 4ja1 | NGH | Stromelysin-1 | 3.4.24.17 | 0.495 | |
| 1hov | I52 | 72 kDa type IV collagenase | 3.4.24.24 | 0.494 | |
| 2d1o | FA4 | Stromelysin-1 | 3.4.24.17 | 0.492 | |
| 1g49 | 111 | Stromelysin-1 | 3.4.24.17 | 0.488 | |
| 4g9l | NGH | Stromelysin-1 | 3.4.24.17 | 0.487 | |
| 4h76 | 10B | Macrophage metalloelastase | 3.4.24.65 | 0.487 | |
| 1xur | PB5 | Collagenase 3 | 3.4.24 | 0.486 | |
| 2oxw | ILE_ALA_GLY | Macrophage metalloelastase | 3.4.24.65 | 0.472 | |
| 1bzs | BSI | Neutrophil collagenase | 3.4.24.34 | 0.470 | |
| 1d8f | SPI | Stromelysin-1 | 3.4.24.17 | 0.470 | |
| 4ozt | P1A | Ecdysone receptor, putative | / | 0.464 | |
| 2v13 | C40 | Renin | 3.4.23.15 | 0.463 | |
| 4ewo | 996 | Beta-secretase 1 | 3.4.23.46 | 0.456 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.455 | |
| 3ohh | 3HH | Beta-secretase 1 | 3.4.23.46 | 0.455 | |
| 5dbf | NDP | Iridoid synthase | 1.3.1.99 | 0.455 | |
| 1xs7 | MMI | Beta-secretase 1 | 3.4.23.46 | 0.454 | |
| 4d89 | BXD | Beta-secretase 1 | 3.4.23.46 | 0.454 | |
| 1d7x | SPC | Stromelysin-1 | 3.4.24.17 | 0.453 | |
| 4lxk | 1YT | Beta-secretase 1 | 3.4.23.46 | 0.453 | |
| 3k5d | XLI | Beta-secretase 1 | 3.4.23.46 | 0.451 | |
| 4lxa | 1YS | Beta-secretase 1 | 3.4.23.46 | 0.451 | |
| 1bqo | N25 | Stromelysin-1 | 3.4.24.17 | 0.449 | |
| 1yqx | NAP | Sinapyl alcohol dehydrogenase | / | 0.448 | |
| 1n5d | NDP | Carbonyl reductase [NADPH] 1 | / | 0.447 | |
| 3dv5 | BAV | Beta-secretase 1 | 3.4.23.46 | 0.447 | |
| 2z2d | HSI | Macrophage metalloelastase | 3.4.24.65 | 0.446 | |
| 3vsw | R31 | Renin | 3.4.23.15 | 0.446 | |
| 4g3j | VNT | Lanosterol 14-alpha-demethylase | / | 0.446 | |
| 5idw | NAP | Short-chain dehydrogenase/reductase SDR | / | 0.446 | |
| 6cts | CIC | Citrate synthase, mitochondrial | 2.3.3.1 | 0.446 | |
| 3bhi | NAP | Carbonyl reductase [NADPH] 1 | 1.1.1.184 | 0.445 | |
| 3cgd | FAD | Coenzyme A disulfide reductase | / | 0.445 | |
| 3zxh | E41 | Collagenase 3 | 3.4.24 | 0.445 | |
| 3duy | AFJ | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 3vsx | R32 | Renin | 3.4.23.15 | 0.444 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.443 | |
| 4yry | FAD | Glutamate synthase, beta subunit | / | 0.443 | |
| 2ewm | NAD | (S)-1-Phenylethanol dehydrogenase | 1.1.1.311 | 0.442 | |
| 3gw9 | VNI | Lanosterol 14-alpha-demethylase | / | 0.441 | |
| 1f8w | FAD | NADH peroxidase | 1.11.1.1 | 0.440 | |
| 1h2b | NAJ | NAD-dependent alcohol dehydrogenase | / | 0.440 | |
| 2eba | FAD | Putative glutaryl-CoA dehydrogenase | / | 0.440 | |
| 2y05 | NAP | Prostaglandin reductase 1 | / | 0.440 | |
| 5dbg | NAD | Iridoid synthase | 1.3.1.99 | 0.440 |