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 |
|---|---|---|---|
| 1mu6 | CDA | Prothrombin | 3.4.21.5 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1mu6 | CDA | Prothrombin | 3.4.21.5 | 1.000 | |
| 1z71 | L17 | Prothrombin | 3.4.21.5 | 0.786 | |
| 1ta6 | 177 | Prothrombin | 3.4.21.5 | 0.765 | |
| 1zgv | 501 | Prothrombin | 3.4.21.5 | 0.737 | |
| 1zgi | 382 | Prothrombin | 3.4.21.5 | 0.717 | |
| 3c1k | T15 | Prothrombin | 3.4.21.5 | 0.702 | |
| 1t4v | 14A | Prothrombin | 3.4.21.5 | 0.700 | |
| 1mue | CDD | Prothrombin | 3.4.21.5 | 0.694 | |
| 1ypg | UIR | Prothrombin | 3.4.21.5 | 0.687 | |
| 1t4u | 81A | Prothrombin | 3.4.21.5 | 0.686 | |
| 1ype | UIP | Prothrombin | 3.4.21.5 | 0.679 | |
| 1ypl | RA8 | Prothrombin | 3.4.21.5 | 0.679 | |
| 2zfq | 45U | Prothrombin | 3.4.21.5 | 0.668 | |
| 2jh5 | 895 | Prothrombin | 3.4.21.5 | 0.658 | |
| 2jh6 | 894 | Prothrombin | 3.4.21.5 | 0.658 | |
| 1nm6 | L86 | Prothrombin | 3.4.21.5 | 0.656 | |
| 2zi2 | 24U | Prothrombin | 3.4.21.5 | 0.651 | |
| 2uuk | 897 | Prothrombin | 3.4.21.5 | 0.650 | |
| 1d6w | 00R | Prothrombin | 3.4.21.5 | 0.649 | |
| 1oyt | FSN | Prothrombin | 3.4.21.5 | 0.642 | |
| 2cn0 | F25 | Prothrombin | 3.4.21.5 | 0.642 | |
| 1nzq | 162 | Prothrombin | 3.4.21.5 | 0.640 | |
| 2zc9 | 22U | Prothrombin | 3.4.21.5 | 0.639 | |
| 1d4p | BPP | Prothrombin | 3.4.21.5 | 0.638 | |
| 3qwc | 98P | Prothrombin | 3.4.21.5 | 0.634 | |
| 2v3o | I26 | Prothrombin | 3.4.21.5 | 0.630 | |
| 1c4y | IH3 | Prothrombin | 3.4.21.5 | 0.626 | |
| 4ax9 | N5N | Prothrombin | 3.4.21.5 | 0.623 | |
| 4n3l | 2FN | Prothrombin | 3.4.21.5 | 0.622 | |
| 2zfr | 46U | Prothrombin | 3.4.21.5 | 0.620 | |
| 1mu8 | CDB | Prothrombin | 3.4.21.5 | 0.615 | |
| 2jh0 | 701 | Prothrombin | 3.4.21.5 | 0.614 | |
| 1k21 | IGN | Prothrombin | 3.4.21.5 | 0.613 | |
| 2r2m | I50 | Prothrombin | 3.4.21.5 | 0.613 | |
| 2zda | 32U | Prothrombin | 3.4.21.5 | 0.613 | |
| 1xm1 | GAH | Prothrombin | 3.4.21.5 | 0.611 | |
| 2bdy | UNB | Prothrombin | 3.4.21.5 | 0.611 | |
| 2cf9 | 348 | Prothrombin | 3.4.21.5 | 0.609 | |
| 1d9i | 00P | Prothrombin | 3.4.21.5 | 0.607 | |
| 1c4u | IH1 | Prothrombin | 3.4.21.5 | 0.606 | |
| 1jwt | BLI | Prothrombin | 3.4.21.5 | 0.604 | |
| 2cf8 | ESH | Prothrombin | 3.4.21.5 | 0.604 | |
| 2znk | 31U | Prothrombin | 3.4.21.5 | 0.603 | |
| 1a4w | QWE | Prothrombin | 3.4.21.5 | 0.602 | |
| 1d3p | BT3 | Prothrombin | 3.4.21.5 | 0.602 | |
| 1afe | ALZ | Prothrombin | 3.4.21.5 | 0.600 | |
| 3hat | GLY_VAL_ARG_RNG | Prothrombin | 3.4.21.5 | 0.598 | |
| 4ayy | 9MX | Prothrombin | 3.4.21.5 | 0.598 | |
| 2anm | CDO | Prothrombin | 3.4.21.5 | 0.597 | |
| 2gde | SN3 | Prothrombin | 3.4.21.5 | 0.597 | |
| 3eq0 | 2TS | Prothrombin | 3.4.21.5 | 0.594 | |
| 7kme | ACE_0BN_CHG_PRR | Prothrombin | 3.4.21.5 | 0.594 | |
| 2zhf | 49U | Prothrombin | 3.4.21.5 | 0.591 | |
| 1d3d | BZT | Prothrombin | 3.4.21.5 | 0.590 | |
| 1sb1 | 165 | Prothrombin | 3.4.21.5 | 0.589 | |
| 1ae8 | AZL | Prothrombin | 3.4.21.5 | 0.585 | |
| 2zhe | 13U | Prothrombin | 3.4.21.5 | 0.585 | |
| 2zf0 | 51U | Prothrombin | 3.4.21.5 | 0.583 | |
| 4bam | MM9 | Prothrombin | 3.4.21.5 | 0.582 | |
| 2bvs | 2CE | Prothrombin | 3.4.21.5 | 0.581 | |
| 2zgb | 21U | Prothrombin | 3.4.21.5 | 0.581 | |
| 1ypm | RA4 | Prothrombin | 3.4.21.5 | 0.579 | |
| 2pks | G44 | Prothrombin | 3.4.21.5 | 0.577 | |
| 4lxb | 7R9 | Prothrombin | 3.4.21.5 | 0.577 | |
| 1zrb | 062 | Prothrombin | 3.4.21.5 | 0.575 | |
| 2zdv | 37U | Prothrombin | 3.4.21.5 | 0.573 | |
| 2zhq | 27U | Prothrombin | 3.4.21.5 | 0.571 | |
| 3dux | 64U | Prothrombin | 3.4.21.5 | 0.571 | |
| 2zg0 | 50U | Prothrombin | 3.4.21.5 | 0.568 | |
| 2zgx | 29U | Prothrombin | 3.4.21.5 | 0.565 | |
| 4e7r | 0NW | Prothrombin | 3.4.21.5 | 0.563 | |
| 4rn6 | 15U | Prothrombin | 3.4.21.5 | 0.562 | |
| 3biu | 10U | Prothrombin | 3.4.21.5 | 0.559 | |
| 4az2 | 9MU | Prothrombin | 3.4.21.5 | 0.558 | |
| 1ypk | CCR | Prothrombin | 3.4.21.5 | 0.556 | |
| 1k22 | MEL | Prothrombin | 3.4.21.5 | 0.555 | |
| 2zhw | 12U | Prothrombin | 3.4.21.5 | 0.553 | |
| 1vzq | SHY | Prothrombin | 3.4.21.5 | 0.550 | |
| 4bak | M67 | Prothrombin | 3.4.21.5 | 0.550 | |
| 2uuj | 896 | Prothrombin | 3.4.21.5 | 0.546 | |
| 4ayv | 9MQ | Prothrombin | 3.4.21.5 | 0.545 | |
| 5cmx | 0G6 | Prothrombin | 3.4.21.5 | 0.541 | |
| 2zfp | 19U | Prothrombin | 3.4.21.5 | 0.540 | |
| 2v3h | I25 | Prothrombin | 3.4.21.5 | 0.539 | |
| 4baq | M4Z | Prothrombin | 3.4.21.5 | 0.535 | |
| 4bao | MVF | Prothrombin | 3.4.21.5 | 0.534 | |
| 1ypj | UIB | Prothrombin | 3.4.21.5 | 0.530 | |
| 2zff | 53U | Prothrombin | 3.4.21.5 | 0.525 | |
| 4ban | M6S | Prothrombin | 3.4.21.5 | 0.522 | |
| 1uma | IN2 | Prothrombin | 3.4.21.5 | 0.520 | |
| 2ziq | 26U | Prothrombin | 3.4.21.5 | 0.518 | |
| 1ta2 | 176 | Prothrombin | 3.4.21.5 | 0.517 | |
| 2bxt | C2D | Prothrombin | 3.4.21.5 | 0.512 | |
| 3utu | 1TS | Prothrombin | 3.4.21.5 | 0.510 | |
| 4bah | MEL | Prothrombin | 3.4.21.5 | 0.508 | |
| 3dhk | 23U | Prothrombin | 3.4.21.5 | 0.507 | |
| 3c27 | DKK | Prothrombin | 3.4.21.5 | 0.501 | |
| 3qdz | PRO_ALA_PRO_ARG | Prothrombin | 3.4.21.5 | 0.490 | |
| 1w7g | MIU | Prothrombin | 3.4.21.5 | 0.488 | |
| 1c4v | IH2 | Prothrombin | 3.4.21.5 | 0.485 | |
| 4hfp | 15U | Prothrombin | 3.4.21.5 | 0.484 | |
| 1riw | OSC | Prothrombin | 3.4.21.5 | 0.483 | |
| 3p17 | 99P | Prothrombin | 3.4.21.5 | 0.483 | |
| 3qto | 10P | Prothrombin | 3.4.21.5 | 0.479 | |
| 4drj | RAP | Serine/threonine-protein kinase mTOR | 2.7.11.1 | 0.469 | |
| 4drj | RAP | Peptidyl-prolyl cis-trans isomerase FKBP4 | 5.2.1.8 | 0.469 | |
| 3egk | M18 | Prothrombin | 3.4.21.5 | 0.464 | |
| 1bcu | PRL | Prothrombin | 3.4.21.5 | 0.463 | |
| 3ada | NAD | Subunit alpha of sarocosine oxidase | / | 0.463 | |
| 3qtv | 06P | Prothrombin | 3.4.21.5 | 0.463 | |
| 2a2x | NA9 | Prothrombin | 3.4.21.5 | 0.462 | |
| 1rne | C60 | Renin | 3.4.23.15 | 0.460 | |
| 1pqc | 444 | Oxysterols receptor LXR-beta | / | 0.459 | |
| 1q0r | AKT | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.459 | |
| 4k8s | 1QT | Beta-secretase 1 | 3.4.23.46 | 0.459 | |
| 1ju2 | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.458 | |
| 2wf3 | ZY3 | Beta-secretase 1 | 3.4.23.46 | 0.458 | |
| 2qim | ZEA | Class 10 plant pathogenesis-related protein | / | 0.457 | |
| 3q43 | D66 | M1 family aminopeptidase | 3.4.11 | 0.457 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.457 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.454 | |
| 4bby | FAD | Alkyldihydroxyacetonephosphate synthase, peroxisomal | 2.5.1.26 | 0.454 | |
| 2iqg | F2I | Beta-secretase 1 | 3.4.23.46 | 0.453 | |
| 3fap | ARD | Peptidyl-prolyl cis-trans isomerase FKBP1A | 5.2.1.8 | 0.451 | |
| 3fap | ARD | Serine/threonine-protein kinase mTOR | 2.7.11.1 | 0.451 | |
| 1q0z | AKA | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.449 | |
| 2wf1 | ZY1 | Beta-secretase 1 | 3.4.23.46 | 0.447 | |
| 3k5c | 0BI | Beta-secretase 1 | 3.4.23.46 | 0.447 | |
| 3vqs | JT1 | Genome polyprotein | / | 0.447 | |
| 3zoi | M2W | Isopenicillin N synthase | 1.21.3.1 | 0.447 | |
| 4kby | C2E | Stimulator of interferon genes protein | / | 0.447 | |
| 2jb4 | A14 | Isopenicillin N synthase | 1.21.3.1 | 0.446 | |
| 4x28 | FDA | Acyl-CoA dehydrogenase FadE26 | / | 0.446 | |
| 4x28 | FDA | Acyl-CoA dehydrogenase FadE27 | / | 0.446 | |
| 2vj6 | VG5 | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 1sa5 | BMV | Protein farnesyltransferase subunit beta | 2.5.1.58 | 0.444 | |
| 2vbd | V10 | Isopenicillin N synthase | 1.21.3.1 | 0.443 | |
| 3eks | CY9 | Actin-5C | / | 0.443 | |
| 4btt | VYR | Coagulation factor X | 3.4.21.6 | 0.443 | |
| 1qjf | ACS | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.441 | |
| 1gj4 | 132 | Prothrombin | 3.4.21.5 | 0.440 | |
| 1ny2 | ARG_PRO_PRO_GLY | Prothrombin | 3.4.21.5 | 0.440 | |
| 1z7y | AA5 | Cysteine synthase 1 | 2.5.1.47 | 0.440 | |
| 3oqk | S52 | Renin | 3.4.23.15 | 0.440 | |
| 3te5 | NAI | 5'-AMP-activated protein kinase subunit gamma | / | 0.440 | |
| 3upk | UD1 | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | / | 0.440 | |
| 4dri | RAP | Serine/threonine-protein kinase mTOR | 2.7.11.1 | 0.440 | |
| 4dri | RAP | Peptidyl-prolyl cis-trans isomerase FKBP5 | 5.2.1.8 | 0.440 | |
| 4jji | NAD | Alcohol dehydrogenase class-3 | / | 0.440 |