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 |
|---|---|---|---|
| 5iqb | GNP | Bifunctional AAC/APH | 2.3.1 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 5iqb | GNP | Bifunctional AAC/APH | 2.3.1 | 1.000 | |
| 5iqd | GNP | Bifunctional AAC/APH | 2.3.1 | 0.715 | |
| 5iqa | GNP | Bifunctional AAC/APH | 2.3.1 | 0.681 | |
| 5byl | GCP | Bifunctional AAC/APH | 2.3.1 | 0.662 | |
| 5iqe | GNP | Bifunctional AAC/APH | 2.3.1 | 0.635 | |
| 5iqh | GNP | Bifunctional AAC/APH | 2.3.1 | 0.618 | |
| 5iqi | GNP | Bifunctional AAC/APH | 2.3.1 | 0.617 | |
| 5iqg | GDP | Bifunctional AAC/APH | 2.3.1 | 0.604 | |
| 4ork | GDP | Bifunctional AAC/APH | 2.3.1 | 0.562 | |
| 2hq9 | FAD | Mll6688 protein | / | 0.471 | |
| 4dh3 | ATP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.471 | |
| 2pui | ADP | Methylthioribose kinase | 2.7.1.100 | 0.467 | |
| 3kpf | FAD | Polyamine oxidase | 1.5.3.14 | 0.466 | |
| 3up0 | D7S | aceDAF-12 | / | 0.466 | |
| 1e90 | MYC | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.465 | |
| 4dh5 | ADP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.465 | |
| 5dp2 | NAP | CurF | / | 0.465 | |
| 2ix5 | FAD | Acyl-coenzyme A oxidase 4, peroxisomal | 1.3.3.6 | 0.462 | |
| 4uof | DAT | Nucleoside diphosphate kinase | / | 0.462 | |
| 3say | OFT | Glycogen synthase kinase-3 beta | 2.7.11.26 | 0.460 | |
| 4ix5 | ANP | Uncharacterized protein | / | 0.460 | |
| 4iac | ACP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.459 | |
| 3tdw | GDP | Gentamicin resistance protein | / | 0.458 | |
| 3nga | 3NG | Casein kinase II subunit alpha | 2.7.11.1 | 0.457 | |
| 1h83 | FAD | Polyamine oxidase | 1.5.3.14 | 0.456 | |
| 4iaf | ADP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.456 | |
| 3gc9 | B45 | Mitogen-activated protein kinase 11 | 2.7.11.24 | 0.455 | |
| 3idb | ANP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.455 | |
| 2qo9 | ANP | Ephrin type-A receptor 3 | 2.7.10.1 | 0.454 | |
| 3qts | X46 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.453 | |
| 3i8p | 840 | 3-oxoacyl-[acyl-carrier-protein] synthase 2 | 2.3.1.179 | 0.452 | |
| 1pd9 | CO4 | Dihydrofolate reductase | 1.5.1.3 | 0.451 | |
| 3x2w | ATP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.451 | |
| 1bwl | FMN | NADPH dehydrogenase 1 | 1.6.99.1 | 0.450 | |
| 2b9f | ADP | Mitogen-activated protein kinase FUS3 | 2.7.11.24 | 0.450 | |
| 1cdk | ANP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.449 | |
| 4idg | NAD | Putative UDP-glucose 4-epimerase | / | 0.449 | |
| 4jvb | 1M0 | Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta | / | 0.449 | |
| 1ju9 | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.448 | |
| 2wns | OMP | Uridine 5'-monophosphate synthase | 2.4.2.10 | 0.448 | |
| 3itz | P66 | Mitogen-activated protein kinase 14 | / | 0.447 | |
| 4xj3 | GTP | Cyclic GMP-AMP synthase | / | 0.447 | |
| 4z34 | ON7 | Lysophosphatidic acid receptor 1 | / | 0.447 | |
| 1xpq | FAD | Polyamine oxidase FMS1 | / | 0.446 | |
| 2vd5 | BI8 | Myotonin-protein kinase | 2.7.11.1 | 0.446 | |
| 4tvb | NAD | Homospermidine synthase | 2.5.1.44 | 0.446 | |
| 1o6q | R17 | Squalene--hopene cyclase | 4.2.1.129 | 0.445 | |
| 3bbf | GDP | Nucleoside diphosphate kinase B | 2.7.4.6 | 0.445 | |
| 4lb2 | DM5 | Serum albumin | / | 0.445 | |
| 1zzl | TZY | Mitogen-activated protein kinase 14 | / | 0.444 | |
| 4die | C5P | Cytidylate kinase | / | 0.444 | |
| 4iad | ADP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.444 | |
| 4xvy | SAH | Mycinamicin III 3''-O-methyltransferase | 2.1.1.237 | 0.444 | |
| 4yek | THM | Thymidine phosphorylase | / | 0.444 | |
| 2a19 | ANP | Interferon-induced, double-stranded RNA-activated protein kinase | 2.7.11.1 | 0.443 | |
| 4ech | FAD | Polyamine oxidase FMS1 | / | 0.443 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.443 | |
| 2qcs | ANP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.442 | |
| 4fhk | 0U0 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.442 | |
| 4uug | PXG | Branched-chain amino acid aminotransferase, putative | / | 0.442 | |
| 1x8b | 824 | Wee1-like protein kinase | 2.7.10.2 | 0.441 | |
| 2hm9 | TRR | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 3w8e | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.441 | |
| 4kp7 | 1UQ | 1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic | 1.1.1.267 | 0.441 | |
| 4pd6 | URI | Nucleoside permease | / | 0.441 | |
| 2yac | 937 | Serine/threonine-protein kinase PLK1 | 2.7.11.21 | 0.440 | |
| 3rpr | 25Z | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.440 | |
| 3w0s | ANP | Hygromycin-B 4-O-kinase | 2.7.1.163 | 0.440 | |
| 4bfy | ZVY | Pantothenate kinase | 2.7.1.33 | 0.440 | |
| 4xj4 | 3AT | Cyclic GMP-AMP synthase | / | 0.440 |