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 |
|---|---|---|---|
| 5c1d | 12V | UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 5c1d | 12V | UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit | / | 1.000 | |
| 4gz6 | 12V | UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit | / | 0.604 | |
| 5bnw | 12V | UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit | / | 0.570 | |
| 5a01 | 12V | O-glycosyltransferase | / | 0.543 | |
| 4e2d | FMN | Dehydrogenase | / | 0.478 | |
| 3p62 | FMN | Pentaerythritol tetranitrate reductase | / | 0.477 | |
| 4df2 | FMN | NADPH dehydrogenase | / | 0.469 | |
| 4jic | FMN | GTN Reductase | / | 0.469 | |
| 1w6h | TIT | Plasmepsin-2 | 3.4.23.39 | 0.468 | |
| 1npd | NAD | Quinate/shikimate dehydrogenase | / | 0.467 | |
| 1o9b | NAI | Quinate/shikimate dehydrogenase | / | 0.461 | |
| 2ejz | SAH | Diphthine synthase | / | 0.461 | |
| 3tjz | GNP | ADP-ribosylation factor 1 | / | 0.461 | |
| 1xe6 | 5FP | Plasmepsin-2 | 3.4.23.39 | 0.459 | |
| 4fuj | 1U9 | Urokinase-type plasminogen activator | 3.4.21.73 | 0.457 | |
| 2gv8 | NDP | Thiol-specific monooxygenase | 1.14.13 | 0.456 | |
| 3q9b | B3N | Acetylpolyamine amidohydrolase | / | 0.456 | |
| 3f03 | FMN | Pentaerythritol tetranitrate reductase | / | 0.455 | |
| 3tr0 | 5GP | Guanylate kinase | / | 0.455 | |
| 3vyf | VYF | Renin | 3.4.23.15 | 0.455 | |
| 3te5 | NAI | 5'-AMP-activated protein kinase subunit gamma | / | 0.454 | |
| 3vyd | VYD | Renin | 3.4.23.15 | 0.454 | |
| 1uda | UFG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.453 | |
| 2iyf | ERY | Oleandomycin glycosyltransferase | 2.4.1 | 0.453 | |
| 3dys | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.453 | |
| 3jus | BCD | Lanosterol 14-alpha demethylase | 1.14.13.70 | 0.453 | |
| 2hfu | MEV | Mevalonate kinase | / | 0.451 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.451 | |
| 4tmb | FMN | Old yellow enzyme | / | 0.451 | |
| 1bil | 0IU | Renin | 3.4.23.15 | 0.450 | |
| 1h50 | FMN | Pentaerythritol tetranitrate reductase | / | 0.450 | |
| 1h73 | ANP | Homoserine kinase | 2.7.1.39 | 0.450 | |
| 2daa | DCS | D-alanine aminotransferase | 2.6.1.21 | 0.450 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.450 | |
| 1ics | FMN | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.449 | |
| 1zdw | FLV | Prenyltransferase | / | 0.449 | |
| 2v16 | C47 | Renin | 3.4.23.15 | 0.449 | |
| 3d91 | REM | Renin | 3.4.23.15 | 0.449 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.448 | |
| 5dw6 | 0T1 | Succinyl-CoA:acetate CoA-transferase | / | 0.448 | |
| 4ey6 | GNT | Acetylcholinesterase | 3.1.1.7 | 0.447 | |
| 4tmc | FMN | Old yellow enzyme | / | 0.447 | |
| 5czy | SAM | Eukaryotic huntingtin interacting protein B | / | 0.447 | |
| 1nvt | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.446 | |
| 2ggs | NDP | dTDP-4-dehydrorhamnose reductase | / | 0.446 | |
| 3p74 | FMN | Pentaerythritol tetranitrate reductase | / | 0.446 | |
| 4j0v | 1H7 | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 1qbq | HFP | Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha | / | 0.445 | |
| 1qbq | HFP | Protein farnesyltransferase subunit beta | 2.5.1.58 | 0.445 | |
| 2b37 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.445 | |
| 3gfb | NAD | L-threonine 3-dehydrogenase | / | 0.445 | |
| 1h63 | FMN | Pentaerythritol tetranitrate reductase | / | 0.444 | |
| 1owe | 675 | Urokinase-type plasminogen activator | 3.4.21.73 | 0.444 | |
| 1rne | C60 | Renin | 3.4.23.15 | 0.444 | |
| 2a57 | CRM | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.444 | |
| 4acx | S8Z | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 5d3q | GDP | Dynamin-1 | 3.6.5.5 | 0.444 | |
| 2g22 | 6IG | Renin | 3.4.23.15 | 0.443 | |
| 3gka | FMN | N-ethylmaleimide reductase | / | 0.443 | |
| 3toz | NAD | Shikimate dehydrogenase (NADP(+)) | / | 0.443 | |
| 4k6f | NAP | Putative Acetoacetyl-CoA reductase | / | 0.443 | |
| 4m83 | ERY | Oleandomycin glycosyltransferase | 2.4.1 | 0.443 | |
| 1bvr | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.442 | |
| 1xva | SAM | Glycine N-methyltransferase | 2.1.1.20 | 0.442 | |
| 2g1y | 5IG | Renin | 3.4.23.15 | 0.442 | |
| 2xgo | ZKD | Uncharacterized protein | / | 0.442 | |
| 3cty | FAD | Probable thioredoxin reductase | / | 0.442 | |
| 3lqs | PSZ | D-alanine aminotransferase | 2.6.1.21 | 0.442 | |
| 4b63 | NAP | L-ornithine N(5)-monooxygenase | / | 0.442 | |
| 4a6n | FAD | TetX family tetracycline inactivation enzyme | / | 0.441 | |
| 4loi | 1YC | Stimulator of interferon genes protein | / | 0.441 | |
| 1g1a | NAD | dTDP-glucose 4,6-dehydratase | / | 0.440 | |
| 2il2 | LIX | Renin | 3.4.23.15 | 0.440 | |
| 3atz | FMN | Prostaglandin F2a synthase | / | 0.440 | |
| 4ef8 | FMN | Dihydroorotate dehydrogenase (fumarate) | / | 0.440 | |
| 4yj2 | GTP | Tubulin alpha-1B chain | / | 0.440 |