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 |
|---|---|---|---|
| 4ld2 | CTN | Cytidine and deoxycytidylate deaminase zinc-binding region |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 4ld2 | CTN | Cytidine and deoxycytidylate deaminase zinc-binding region | / | 1.000 | |
| 4hrq | AZG | Cytidine and deoxycytidylate deaminase zinc-binding region | / | 0.667 | |
| 4lcn | GNG | Cytidine and deoxycytidylate deaminase zinc-binding region | / | 0.487 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.467 | |
| 3af1 | GDP | Pantothenate kinase | 2.7.1.33 | 0.466 | |
| 2a59 | LMZ | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.460 | |
| 2cek | N8T | Acetylcholinesterase | 3.1.1.7 | 0.460 | |
| 3h3r | 14H | Collagen type IV alpha-3-binding protein | / | 0.460 | |
| 4eso | NAP | Putative oxidoreductase | / | 0.459 | |
| 3dyl | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.456 | |
| 3ele | PLP | Aminotransferase | / | 0.455 | |
| 1h22 | E10 | Acetylcholinesterase | 3.1.1.7 | 0.454 | |
| 3ryk | TYD | dTDP-4-dehydrorhamnose 3,5-epimerase | / | 0.454 | |
| 2nmt | MIM | Glycylpeptide N-tetradecanoyltransferase | 2.3.1.97 | 0.453 | |
| 3bxo | UPP | dTDP-3-amino-3,4,6-trideoxy-alpha-D-glucopyranose | / | 0.453 | |
| 2xuo | TZ4 | Acetylcholinesterase | 3.1.1.7 | 0.452 | |
| 2a58 | RBF | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.451 | |
| 3dhk | 23U | Prothrombin | 3.4.21.5 | 0.451 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.451 | |
| 1zgb | A1E | Acetylcholinesterase | 3.1.1.7 | 0.450 | |
| 4a2z | VIQ | Glycylpeptide N-tetradecanoyltransferase | / | 0.450 | |
| 1po7 | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.448 | |
| 2whq | HI6 | Acetylcholinesterase | 3.1.1.7 | 0.447 | |
| 3h3s | H15 | Collagen type IV alpha-3-binding protein | / | 0.447 | |
| 1zgc | A2E | Acetylcholinesterase | 3.1.1.7 | 0.446 | |
| 3gdp | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.446 | |
| 3hxd | BD7 | Geranylgeranyl transferase type-2 subunit beta | 2.5.1.60 | 0.445 | |
| 1akc | PPE | Aspartate aminotransferase, mitochondrial | 2.6.1.1 | 0.444 | |
| 1d3d | BZT | Prothrombin | 3.4.21.5 | 0.444 | |
| 1qti | GNT | Acetylcholinesterase | 3.1.1.7 | 0.444 | |
| 1u65 | CP0 | Acetylcholinesterase | 3.1.1.7 | 0.444 | |
| 1ypj | UIB | Prothrombin | 3.4.21.5 | 0.444 | |
| 2j3q | TFL | Acetylcholinesterase | 3.1.1.7 | 0.444 | |
| 2o1s | TDP | 1-deoxy-D-xylulose-5-phosphate synthase | 2.2.1.7 | 0.444 | |
| 3dyl | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.444 | |
| 3ivc | FG4 | Pantothenate synthetase | 6.3.2.1 | 0.444 | |
| 2a57 | CRM | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.443 | |
| 4rvd | SAM | D-mycarose 3-C-methyltransferase | / | 0.443 | |
| 4ey6 | GNT | Acetylcholinesterase | 3.1.1.7 | 0.442 | |
| 4r5w | XAV | Poly [ADP-ribose] polymerase 1 | 2.4.2.30 | 0.442 | |
| 3elb | C5P | Ethanolamine-phosphate cytidylyltransferase | 2.7.7.14 | 0.441 | |
| 1fds | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.440 | |
| 1h6c | NDP | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.440 | |
| 1ni4 | TPP | Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial | 1.2.4.1 | 0.440 | |
| 1ni4 | TPP | Pyruvate dehydrogenase E1 component subunit beta, mitochondrial | 1.2.4.1 | 0.440 | |
| 2zs9 | ADP | Pantothenate kinase | 2.7.1.33 | 0.440 | |
| 3ggs | 2FD | Purine nucleoside phosphorylase | 2.4.2.1 | 0.440 | |
| 4bzb | DGT | Deoxynucleoside triphosphate triphosphohydrolase SAMHD1 | 3.1.5 | 0.440 | |
| 4ms1 | 381 | Gamma-aminobutyric acid type B receptor subunit 1 | / | 0.440 |