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 |
|---|---|---|---|
| 4bak | M67 | Prothrombin | 3.4.21.5 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4bak | M67 | Prothrombin | 3.4.21.5 | 1.000 | |
| 4bam | MM9 | Prothrombin | 3.4.21.5 | 0.812 | |
| 7kme | ACE_0BN_CHG_PRR | Prothrombin | 3.4.21.5 | 0.787 | |
| 4ban | M6S | Prothrombin | 3.4.21.5 | 0.786 | |
| 4baq | M4Z | Prothrombin | 3.4.21.5 | 0.784 | |
| 2zgb | 21U | Prothrombin | 3.4.21.5 | 0.774 | |
| 3eq0 | 2TS | Prothrombin | 3.4.21.5 | 0.759 | |
| 2zgx | 29U | Prothrombin | 3.4.21.5 | 0.756 | |
| 2znk | 31U | Prothrombin | 3.4.21.5 | 0.756 | |
| 3dux | 64U | Prothrombin | 3.4.21.5 | 0.743 | |
| 4bao | MVF | Prothrombin | 3.4.21.5 | 0.726 | |
| 2zhe | 13U | Prothrombin | 3.4.21.5 | 0.722 | |
| 2zf0 | 51U | Prothrombin | 3.4.21.5 | 0.721 | |
| 2zc9 | 22U | Prothrombin | 3.4.21.5 | 0.711 | |
| 2zi2 | 24U | Prothrombin | 3.4.21.5 | 0.705 | |
| 2zda | 32U | Prothrombin | 3.4.21.5 | 0.702 | |
| 2zdv | 37U | Prothrombin | 3.4.21.5 | 0.702 | |
| 2zfr | 46U | Prothrombin | 3.4.21.5 | 0.690 | |
| 3biu | 10U | Prothrombin | 3.4.21.5 | 0.684 | |
| 2zff | 53U | Prothrombin | 3.4.21.5 | 0.681 | |
| 4bah | MEL | Prothrombin | 3.4.21.5 | 0.676 | |
| 1afe | ALZ | Prothrombin | 3.4.21.5 | 0.675 | |
| 1zrb | 062 | Prothrombin | 3.4.21.5 | 0.675 | |
| 3hat | GLY_VAL_ARG_RNG | Prothrombin | 3.4.21.5 | 0.674 | |
| 1mue | CDD | Prothrombin | 3.4.21.5 | 0.660 | |
| 1d6w | 00R | Prothrombin | 3.4.21.5 | 0.656 | |
| 2zhq | 27U | Prothrombin | 3.4.21.5 | 0.655 | |
| 2zhf | 49U | Prothrombin | 3.4.21.5 | 0.653 | |
| 1t4v | 14A | Prothrombin | 3.4.21.5 | 0.647 | |
| 2zfq | 45U | Prothrombin | 3.4.21.5 | 0.645 | |
| 1k21 | IGN | Prothrombin | 3.4.21.5 | 0.639 | |
| 2r2m | I50 | Prothrombin | 3.4.21.5 | 0.638 | |
| 2v3o | I26 | Prothrombin | 3.4.21.5 | 0.637 | |
| 1z71 | L17 | Prothrombin | 3.4.21.5 | 0.636 | |
| 1k22 | MEL | Prothrombin | 3.4.21.5 | 0.634 | |
| 2anm | CDO | Prothrombin | 3.4.21.5 | 0.634 | |
| 1c4u | IH1 | Prothrombin | 3.4.21.5 | 0.631 | |
| 1ae8 | AZL | Prothrombin | 3.4.21.5 | 0.630 | |
| 2zg0 | 50U | Prothrombin | 3.4.21.5 | 0.628 | |
| 1t4u | 81A | Prothrombin | 3.4.21.5 | 0.627 | |
| 1ypl | RA8 | Prothrombin | 3.4.21.5 | 0.625 | |
| 3qto | 10P | Prothrombin | 3.4.21.5 | 0.624 | |
| 2zfp | 19U | Prothrombin | 3.4.21.5 | 0.623 | |
| 1d4p | BPP | Prothrombin | 3.4.21.5 | 0.621 | |
| 1zgv | 501 | Prothrombin | 3.4.21.5 | 0.621 | |
| 1d3d | BZT | Prothrombin | 3.4.21.5 | 0.618 | |
| 1ype | UIP | Prothrombin | 3.4.21.5 | 0.614 | |
| 1ypg | UIR | Prothrombin | 3.4.21.5 | 0.614 | |
| 2bxt | C2D | Prothrombin | 3.4.21.5 | 0.614 | |
| 1vzq | SHY | Prothrombin | 3.4.21.5 | 0.612 | |
| 2pks | G44 | Prothrombin | 3.4.21.5 | 0.612 | |
| 1mu6 | CDA | Prothrombin | 3.4.21.5 | 0.611 | |
| 1ypj | UIB | Prothrombin | 3.4.21.5 | 0.605 | |
| 1sb1 | 165 | Prothrombin | 3.4.21.5 | 0.600 | |
| 1jwt | BLI | Prothrombin | 3.4.21.5 | 0.598 | |
| 1zgi | 382 | Prothrombin | 3.4.21.5 | 0.597 | |
| 4ax9 | N5N | Prothrombin | 3.4.21.5 | 0.597 | |
| 4n3l | 2FN | Prothrombin | 3.4.21.5 | 0.596 | |
| 3p17 | 99P | Prothrombin | 3.4.21.5 | 0.595 | |
| 1nzq | 162 | Prothrombin | 3.4.21.5 | 0.594 | |
| 4e7r | 0NW | Prothrombin | 3.4.21.5 | 0.593 | |
| 3dhk | 23U | Prothrombin | 3.4.21.5 | 0.590 | |
| 2uuk | 897 | Prothrombin | 3.4.21.5 | 0.587 | |
| 2zhw | 12U | Prothrombin | 3.4.21.5 | 0.586 | |
| 3c1k | T15 | Prothrombin | 3.4.21.5 | 0.586 | |
| 2jh5 | 895 | Prothrombin | 3.4.21.5 | 0.585 | |
| 1xm1 | GAH | Prothrombin | 3.4.21.5 | 0.584 | |
| 2jh6 | 894 | Prothrombin | 3.4.21.5 | 0.583 | |
| 2uuj | 896 | Prothrombin | 3.4.21.5 | 0.582 | |
| 4ayy | 9MX | Prothrombin | 3.4.21.5 | 0.576 | |
| 1c4y | IH3 | Prothrombin | 3.4.21.5 | 0.574 | |
| 1d9i | 00P | Prothrombin | 3.4.21.5 | 0.574 | |
| 1a4w | QWE | Prothrombin | 3.4.21.5 | 0.572 | |
| 4az2 | 9MU | Prothrombin | 3.4.21.5 | 0.572 | |
| 3c27 | DKK | Prothrombin | 3.4.21.5 | 0.571 | |
| 1ypk | CCR | Prothrombin | 3.4.21.5 | 0.570 | |
| 1oyt | FSN | Prothrombin | 3.4.21.5 | 0.569 | |
| 4lxb | 7R9 | Prothrombin | 3.4.21.5 | 0.568 | |
| 1ypm | RA4 | Prothrombin | 3.4.21.5 | 0.563 | |
| 2jh0 | 701 | Prothrombin | 3.4.21.5 | 0.561 | |
| 2cf9 | 348 | Prothrombin | 3.4.21.5 | 0.557 | |
| 2cn0 | F25 | Prothrombin | 3.4.21.5 | 0.554 | |
| 2bdy | UNB | Prothrombin | 3.4.21.5 | 0.553 | |
| 2gde | SN3 | Prothrombin | 3.4.21.5 | 0.549 | |
| 3biv | 11U | Prothrombin | 3.4.21.5 | 0.549 | |
| 2bvs | 2CE | Prothrombin | 3.4.21.5 | 0.548 | |
| 1nm6 | L86 | Prothrombin | 3.4.21.5 | 0.543 | |
| 1d3p | BT3 | Prothrombin | 3.4.21.5 | 0.542 | |
| 1ta6 | 177 | Prothrombin | 3.4.21.5 | 0.541 | |
| 1w7g | MIU | Prothrombin | 3.4.21.5 | 0.538 | |
| 2cf8 | ESH | Prothrombin | 3.4.21.5 | 0.533 | |
| 3utu | 1TS | Prothrombin | 3.4.21.5 | 0.527 | |
| 5cmx | 0G6 | Prothrombin | 3.4.21.5 | 0.520 | |
| 3qtv | 06P | Prothrombin | 3.4.21.5 | 0.516 | |
| 2v3h | I25 | Prothrombin | 3.4.21.5 | 0.510 | |
| 2ziq | 26U | Prothrombin | 3.4.21.5 | 0.507 | |
| 1riw | OSC | Prothrombin | 3.4.21.5 | 0.504 | |
| 3qwc | 98P | Prothrombin | 3.4.21.5 | 0.504 | |
| 1o0d | 163 | Prothrombin | 3.4.21.5 | 0.484 | |
| 4ayv | 9MQ | Prothrombin | 3.4.21.5 | 0.476 | |
| 3qdz | PRO_ALA_PRO_ARG | Prothrombin | 3.4.21.5 | 0.475 | |
| 1ny2 | ARG_PRO_PRO_GLY | Prothrombin | 3.4.21.5 | 0.468 | |
| 1c4v | IH2 | Prothrombin | 3.4.21.5 | 0.465 | |
| 2znn | S44 | Peroxisome proliferator-activated receptor alpha | / | 0.462 | |
| 1uma | IN2 | Prothrombin | 3.4.21.5 | 0.461 | |
| 2ign | FAD | Pyranose 2-oxidase | / | 0.461 | |
| 2wu4 | HBP | Acetylcholinesterase | 3.1.1.7 | 0.458 | |
| 3ens | ENS | Coagulation factor X | 3.4.21.6 | 0.458 | |
| 3ad9 | NAD | Subunit alpha of sarocosine oxidase | / | 0.457 | |
| 3f68 | 91U | Prothrombin | 3.4.21.5 | 0.457 | |
| 2pg0 | FAD | Acyl-CoA dehydrogenase | / | 0.456 | |
| 3c35 | KAI | Glutamate receptor ionotropic, kainate 1 | / | 0.455 | |
| 3ada | NAD | Subunit alpha of sarocosine oxidase | / | 0.454 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.453 | |
| 1mu8 | CDB | Prothrombin | 3.4.21.5 | 0.453 | |
| 1ib0 | NAD | NADH-cytochrome b5 reductase 3 | 1.6.2.2 | 0.452 | |
| 2uxo | TAC | HTH-type transcriptional regulator TtgR | / | 0.451 | |
| 2wf1 | ZY1 | Beta-secretase 1 | 3.4.23.46 | 0.449 | |
| 3oqf | S51 | Renin | 3.4.23.15 | 0.449 | |
| 3d91 | REM | Renin | 3.4.23.15 | 0.448 | |
| 3fhx | PXL | Pyridoxal kinase | 2.7.1.35 | 0.447 | |
| 1k7f | IAV | Tryptophan synthase alpha chain | / | 0.446 | |
| 3k3h | BYE | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.446 | |
| 1cul | FOK | Adenylate cyclase type 2 | / | 0.445 | |
| 1cul | FOK | Adenylate cyclase type 5 | / | 0.445 | |
| 4arb | C57 | Acetylcholinesterase | 3.1.1.7 | 0.445 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 4kby | C2E | Stimulator of interferon genes protein | / | 0.445 | |
| 1fml | RTL | Retinol dehydratase | / | 0.444 | |
| 4djy | 0KR | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.444 | |
| 2wf3 | ZY3 | Beta-secretase 1 | 3.4.23.46 | 0.443 | |
| 2g1r | 3IG | Renin | 3.4.23.15 | 0.442 | |
| 3bg7 | FAD | Pyranose 2-oxidase | / | 0.442 | |
| 4xr9 | NAD | CalS8 | / | 0.442 | |
| 1s20 | NAD | 2,3-diketo-L-gulonate reductase | 1.1.1.130 | 0.441 | |
| 3k4n | FAD | Pyranose 2-oxidase | / | 0.441 | |
| 4loy | 6XS | Prothrombin | 3.4.21.5 | 0.441 | |
| 1pqc | 444 | Oxysterols receptor LXR-beta | / | 0.440 | |
| 2zat | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.440 |