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 |
|---|---|---|---|
| 4loy | 6XS | Prothrombin | 3.4.21.5 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 4loy | 6XS | Prothrombin | 3.4.21.5 | 1.000 | |
| 4lxb | 7R9 | Prothrombin | 3.4.21.5 | 0.772 | |
| 1gj4 | 132 | Prothrombin | 3.4.21.5 | 0.634 | |
| 1xm1 | GAH | Prothrombin | 3.4.21.5 | 0.632 | |
| 1zgi | 382 | Prothrombin | 3.4.21.5 | 0.632 | |
| 1ypj | UIB | Prothrombin | 3.4.21.5 | 0.621 | |
| 1d4p | BPP | Prothrombin | 3.4.21.5 | 0.615 | |
| 1o2g | 696 | Prothrombin | 3.4.21.5 | 0.611 | |
| 3hat | GLY_VAL_ARG_RNG | Prothrombin | 3.4.21.5 | 0.607 | |
| 2zhf | 49U | Prothrombin | 3.4.21.5 | 0.605 | |
| 1gj5 | 130 | Prothrombin | 3.4.21.5 | 0.600 | |
| 4e7r | 0NW | Prothrombin | 3.4.21.5 | 0.599 | |
| 2zfr | 46U | Prothrombin | 3.4.21.5 | 0.595 | |
| 1d6w | 00R | Prothrombin | 3.4.21.5 | 0.592 | |
| 2gde | SN3 | Prothrombin | 3.4.21.5 | 0.590 | |
| 3dhk | 23U | Prothrombin | 3.4.21.5 | 0.590 | |
| 1bcu | PRL | Prothrombin | 3.4.21.5 | 0.586 | |
| 1ypg | UIR | Prothrombin | 3.4.21.5 | 0.586 | |
| 4ayy | 9MX | Prothrombin | 3.4.21.5 | 0.586 | |
| 1k21 | IGN | Prothrombin | 3.4.21.5 | 0.585 | |
| 3egk | M18 | Prothrombin | 3.4.21.5 | 0.585 | |
| 2v3o | I26 | Prothrombin | 3.4.21.5 | 0.584 | |
| 2zda | 32U | Prothrombin | 3.4.21.5 | 0.581 | |
| 2anm | CDO | Prothrombin | 3.4.21.5 | 0.580 | |
| 2zhe | 13U | Prothrombin | 3.4.21.5 | 0.580 | |
| 1c4v | IH2 | Prothrombin | 3.4.21.5 | 0.578 | |
| 1ype | UIP | Prothrombin | 3.4.21.5 | 0.577 | |
| 1o5g | CR9 | Prothrombin | 3.4.21.5 | 0.573 | |
| 1ta6 | 177 | Prothrombin | 3.4.21.5 | 0.573 | |
| 1oyt | FSN | Prothrombin | 3.4.21.5 | 0.572 | |
| 1k22 | MEL | Prothrombin | 3.4.21.5 | 0.571 | |
| 1mue | CDD | Prothrombin | 3.4.21.5 | 0.570 | |
| 2zi2 | 24U | Prothrombin | 3.4.21.5 | 0.569 | |
| 4ax9 | N5N | Prothrombin | 3.4.21.5 | 0.569 | |
| 2zc9 | 22U | Prothrombin | 3.4.21.5 | 0.568 | |
| 1uma | IN2 | Prothrombin | 3.4.21.5 | 0.566 | |
| 1c4y | IH3 | Prothrombin | 3.4.21.5 | 0.565 | |
| 1uvs | I11 | Prothrombin | 3.4.21.5 | 0.564 | |
| 4az2 | 9MU | Prothrombin | 3.4.21.5 | 0.564 | |
| 1d3p | BT3 | Prothrombin | 3.4.21.5 | 0.563 | |
| 1t4v | 14A | Prothrombin | 3.4.21.5 | 0.563 | |
| 2zhw | 12U | Prothrombin | 3.4.21.5 | 0.563 | |
| 2jh5 | 895 | Prothrombin | 3.4.21.5 | 0.562 | |
| 1c4u | IH1 | Prothrombin | 3.4.21.5 | 0.561 | |
| 1mu6 | CDA | Prothrombin | 3.4.21.5 | 0.560 | |
| 1z71 | L17 | Prothrombin | 3.4.21.5 | 0.560 | |
| 4hfp | 15U | Prothrombin | 3.4.21.5 | 0.556 | |
| 1ae8 | AZL | Prothrombin | 3.4.21.5 | 0.552 | |
| 1c5n | ESI | Prothrombin | 3.4.21.5 | 0.551 | |
| 2r2m | I50 | Prothrombin | 3.4.21.5 | 0.551 | |
| 2zfq | 45U | Prothrombin | 3.4.21.5 | 0.551 | |
| 1w7g | MIU | Prothrombin | 3.4.21.5 | 0.550 | |
| 1riw | OSC | Prothrombin | 3.4.21.5 | 0.549 | |
| 1d3d | BZT | Prothrombin | 3.4.21.5 | 0.548 | |
| 1d9i | 00P | Prothrombin | 3.4.21.5 | 0.548 | |
| 1ypm | RA4 | Prothrombin | 3.4.21.5 | 0.548 | |
| 1afe | ALZ | Prothrombin | 3.4.21.5 | 0.544 | |
| 1sb1 | 165 | Prothrombin | 3.4.21.5 | 0.544 | |
| 2cn0 | F25 | Prothrombin | 3.4.21.5 | 0.543 | |
| 1mu8 | CDB | Prothrombin | 3.4.21.5 | 0.541 | |
| 1jwt | BLI | Prothrombin | 3.4.21.5 | 0.539 | |
| 2cf8 | ESH | Prothrombin | 3.4.21.5 | 0.538 | |
| 2cf9 | 348 | Prothrombin | 3.4.21.5 | 0.537 | |
| 1ghv | 120 | Prothrombin | 3.4.21.5 | 0.536 | |
| 1o0d | 163 | Prothrombin | 3.4.21.5 | 0.536 | |
| 3biu | 10U | Prothrombin | 3.4.21.5 | 0.536 | |
| 1nzq | 162 | Prothrombin | 3.4.21.5 | 0.531 | |
| 1ypk | CCR | Prothrombin | 3.4.21.5 | 0.530 | |
| 1zgv | 501 | Prothrombin | 3.4.21.5 | 0.530 | |
| 3eq0 | 2TS | Prothrombin | 3.4.21.5 | 0.530 | |
| 4ayv | 9MQ | Prothrombin | 3.4.21.5 | 0.530 | |
| 2ziq | 26U | Prothrombin | 3.4.21.5 | 0.527 | |
| 2bvs | 2CE | Prothrombin | 3.4.21.5 | 0.525 | |
| 2zg0 | 50U | Prothrombin | 3.4.21.5 | 0.523 | |
| 3dux | 64U | Prothrombin | 3.4.21.5 | 0.521 | |
| 2jh0 | 701 | Prothrombin | 3.4.21.5 | 0.518 | |
| 4n3l | 2FN | Prothrombin | 3.4.21.5 | 0.515 | |
| 2zhq | 27U | Prothrombin | 3.4.21.5 | 0.514 | |
| 1a4w | QWE | Prothrombin | 3.4.21.5 | 0.512 | |
| 2znk | 31U | Prothrombin | 3.4.21.5 | 0.511 | |
| 3f68 | 91U | Prothrombin | 3.4.21.5 | 0.510 | |
| 3qdz | PRO_ALA_PRO_ARG | Prothrombin | 3.4.21.5 | 0.508 | |
| 1ny2 | ARG_PRO_PRO_GLY | Prothrombin | 3.4.21.5 | 0.507 | |
| 1zrb | 062 | Prothrombin | 3.4.21.5 | 0.505 | |
| 1vzq | SHY | Prothrombin | 3.4.21.5 | 0.503 | |
| 3biv | 11U | Prothrombin | 3.4.21.5 | 0.503 | |
| 4bah | MEL | Prothrombin | 3.4.21.5 | 0.503 | |
| 2a2x | NA9 | Prothrombin | 3.4.21.5 | 0.502 | |
| 3qto | 10P | Prothrombin | 3.4.21.5 | 0.499 | |
| 4bam | MM9 | Prothrombin | 3.4.21.5 | 0.499 | |
| 1kts | C24 | Prothrombin | 3.4.21.5 | 0.498 | |
| 4rn6 | 15U | Prothrombin | 3.4.21.5 | 0.497 | |
| 2jh6 | 894 | Prothrombin | 3.4.21.5 | 0.495 | |
| 1ta2 | 176 | Prothrombin | 3.4.21.5 | 0.485 | |
| 3p17 | 99P | Prothrombin | 3.4.21.5 | 0.485 | |
| 4bao | MVF | Prothrombin | 3.4.21.5 | 0.481 | |
| 1vja | 7IN | Urokinase-type plasminogen activator | 3.4.21.73 | 0.478 | |
| 3c27 | DKK | Prothrombin | 3.4.21.5 | 0.478 | |
| 3v0x | ANH | Cationic trypsin | 3.4.21.4 | 0.478 | |
| 1hfq | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.477 | |
| 7kme | ACE_0BN_CHG_PRR | Prothrombin | 3.4.21.5 | 0.477 | |
| 2uuj | 896 | Prothrombin | 3.4.21.5 | 0.475 | |
| 2uuk | 897 | Prothrombin | 3.4.21.5 | 0.473 | |
| 1c1u | BAI | Prothrombin | 3.4.21.5 | 0.469 | |
| 1zsk | 421 | Coagulation factor XI | 3.4.21.27 | 0.469 | |
| 1owe | 675 | Urokinase-type plasminogen activator | 3.4.21.73 | 0.467 | |
| 3qtv | 06P | Prothrombin | 3.4.21.5 | 0.466 | |
| 1c1w | BAH | Prothrombin | 3.4.21.5 | 0.464 | |
| 4baq | M4Z | Prothrombin | 3.4.21.5 | 0.463 | |
| 1tll | FMN | Nitric oxide synthase, brain | 1.14.13.39 | 0.462 | |
| 4fue | 7UP | Urokinase-type plasminogen activator | 3.4.21.73 | 0.462 | |
| 4a86 | 2AN | Major pollen allergen Bet v 1-A | / | 0.460 | |
| 4ban | M6S | Prothrombin | 3.4.21.5 | 0.460 | |
| 2g00 | 4QC | Coagulation factor X | 3.4.21.6 | 0.455 | |
| 1cnf | FAD | Nitrate reductase [NADH] | 1.7.1.1 | 0.453 | |
| 1f92 | UKP | Urokinase-type plasminogen activator | 3.4.21.73 | 0.451 | |
| 2bxt | C2D | Prothrombin | 3.4.21.5 | 0.450 | |
| 4e2d | FMN | Dehydrogenase | / | 0.448 | |
| 4a86 | H35 | Major pollen allergen Bet v 1-A | / | 0.447 | |
| 1sqt | UI3 | Urokinase-type plasminogen activator | 3.4.21.73 | 0.446 | |
| 4eyw | L0R | Carnitine O-palmitoyltransferase 2, mitochondrial | 2.3.1.21 | 0.445 | |
| 2viv | VG2 | Urokinase-type plasminogen activator | 3.4.21.73 | 0.443 | |
| 2zev | IPE | Geranylgeranyl pyrophosphate synthase | / | 0.443 | |
| 4fuf | 8UP | Urokinase-type plasminogen activator | 3.4.21.73 | 0.443 | |
| 3vyf | VYF | Renin | 3.4.23.15 | 0.442 | |
| 4a8v | 2AN | Major pollen allergen Bet v 1-J | / | 0.442 | |
| 4kby | C2E | Stimulator of interferon genes protein | / | 0.442 | |
| 1p0p | BCH | Cholinesterase | 3.1.1.8 | 0.441 | |
| 3v2u | ATP | Protein GAL3 | / | 0.441 | |
| 4e5y | NDP | GDP-L-fucose synthase | 1.1.1.271 | 0.441 | |
| 2vke | TAC | Tetracycline repressor protein class D | / | 0.440 | |
| 3phi | NDP | Shikimate dehydrogenase (NADP(+)) | / | 0.440 |