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 |
|---|---|---|---|
| 4hl1 | ZZ7 | Metallo-beta-lactamase type 2 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4hl1 | ZZ7 | Metallo-beta-lactamase type 2 | / | 1.000 | |
| 4hl2 | ZZ7 | Metallo-beta-lactamase type 2 | / | 0.571 | |
| 4h0d | ZZ7 | Metallo-beta-lactamase type 2 | / | 0.566 | |
| 4raw | ZZ7 | Metallo-beta-lactamase type 2 | / | 0.557 | |
| 4ram | PNM | Metallo-beta-lactamase type 2 | / | 0.531 | |
| 4eyb | 0WO | Metallo-beta-lactamase type 2 | / | 0.487 | |
| 1dd6 | MCI | Metallo-beta-lactamase type 2 | / | 0.485 | |
| 1kkq | 471 | Peroxisome proliferator-activated receptor alpha | / | 0.481 | |
| 3gmd | 2M3 | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.480 | |
| 2flh | ZEA | Cytokinin-specific binding protein | / | 0.479 | |
| 4q0k | GA3 | Phytohormone-binding protein | / | 0.476 | |
| 1qxl | FR8 | Adenosine deaminase | 3.5.4.4 | 0.467 | |
| 1bk0 | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.466 | |
| 3fco | IIG | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.463 | |
| 4qe6 | JN3 | Bile acid receptor | / | 0.463 | |
| 1osv | CHC | Bile acid receptor | / | 0.462 | |
| 1kvo | OAP | Phospholipase A2, membrane associated | / | 0.461 | |
| 3iog | SDF | Metallo-beta-lactamase type 2 | / | 0.461 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.460 | |
| 1a8t | 061 | Metallo-beta-lactamase type 2 | / | 0.459 | |
| 2ivi | ACW | Isopenicillin N synthase | 1.21.3.1 | 0.459 | |
| 4exs | X8Z | Metallo-beta-lactamase type 2 | / | 0.459 | |
| 4psb | GA3 | Cytokinin-specific binding protein | / | 0.459 | |
| 3zoi | M2W | Isopenicillin N synthase | 1.21.3.1 | 0.458 | |
| 4eyf | PNK | Metallo-beta-lactamase type 2 | / | 0.457 | |
| 4xiw | AZM | Carbonic anhydrase, alpha type | / | 0.457 | |
| 1fmj | RTL | Retinol dehydratase | / | 0.456 | |
| 1obn | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.456 | |
| 2jb4 | A14 | Isopenicillin N synthase | 1.21.3.1 | 0.456 | |
| 3vqs | JT1 | Genome polyprotein | / | 0.456 | |
| 1qiq | ACC | Isopenicillin N synthase | 1.21.3.1 | 0.455 | |
| 2bel | CBO | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.455 | |
| 1x8l | OXR | Retinol dehydratase | / | 0.454 | |
| 4f4d | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.454 | |
| 1o5r | FR9 | Adenosine deaminase | 3.5.4.4 | 0.453 | |
| 2ivn | ANP | tRNA N6-adenosine threonylcarbamoyltransferase | / | 0.453 | |
| 3rhh | NAP | NADP-dependent glyceraldehyde-3-phosphate dehydrogenase | / | 0.453 | |
| 4ey2 | 0RM | Metallo-beta-lactamase type 2 | / | 0.453 | |
| 3c0i | 3AM | Peripheral plasma membrane protein CASK | 2.7.11.1 | 0.452 | |
| 3o6o | 94M | Heat shock protein 83 | / | 0.452 | |
| 1hb3 | SCV | Isopenicillin N synthase | 1.21.3.1 | 0.451 | |
| 3ivc | FG4 | Pantothenate synthetase | 6.3.2.1 | 0.451 | |
| 1fxf | MJI | Phospholipase A2, major isoenzyme | 3.1.1.4 | 0.450 | |
| 1fm4 | DXC | Major pollen allergen Bet v 1-L | / | 0.449 | |
| 1kqu | BR4 | Phospholipase A2, membrane associated | / | 0.449 | |
| 3qpp | PFW | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.449 | |
| 1xkd | NAP | Isocitrate dehydrogenase [NADP] | / | 0.448 | |
| 2qd3 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.448 | |
| 5fl4 | 9FK | Carbonic anhydrase 9 | 4.2.1.1 | 0.448 | |
| 1hb1 | OCV | Isopenicillin N synthase | 1.21.3.1 | 0.447 | |
| 2eba | FAD | Putative glutaryl-CoA dehydrogenase | / | 0.447 | |
| 3akn | 11D | Fatty acid-binding protein, intestinal | / | 0.446 | |
| 3qpn | PFK | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.446 | |
| 4dc0 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.446 | |
| 4kq2 | U5P | Glycogen [starch] synthase isoform 2 | 2.4.1.11 | 0.446 | |
| 1jjt | BDS | Beta-lactamase | / | 0.445 | |
| 1kfc | IPL | Tryptophan synthase alpha chain | / | 0.445 | |
| 1uml | FR4 | Adenosine deaminase | 3.5.4.4 | 0.445 | |
| 2vcm | M11 | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 2y60 | M8F | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 3ch6 | 311 | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.445 | |
| 3l0l | HC3 | Nuclear receptor ROR-gamma | / | 0.445 | |
| 3ozd | 4CT | S-methyl-5'-thioadenosine phosphorylase | / | 0.445 | |
| 3vtb | TKA | Vitamin D3 receptor | / | 0.445 | |
| 1gsf | EAA | Glutathione S-transferase A1 | 2.5.1.18 | 0.444 | |
| 1w06 | W05 | Isopenicillin N synthase | 1.21.3.1 | 0.444 | |
| 2w71 | L23 | Biotin carboxylase | 6.3.4.14 | 0.444 | |
| 3h6k | 33T | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.444 | |
| 5hsa | FAS | Alcohol oxidase 1 | 1.1.3.13 | 0.444 | |
| 1jje | BYS | Beta-lactamase | / | 0.443 | |
| 2vbd | V10 | Isopenicillin N synthase | 1.21.3.1 | 0.443 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.443 | |
| 4jaz | STL | Peroxisome proliferator-activated receptor gamma | / | 0.443 | |
| 1ege | FAD | Medium-chain specific acyl-CoA dehydrogenase, mitochondrial | 1.3.8.7 | 0.442 | |
| 2f7x | 4EA | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.442 | |
| 2qo5 | CHD | Fatty acid-binding protein 10-A, liver basic | / | 0.442 | |
| 2z1q | FAD | Acyl-CoA dehydrogenase | / | 0.442 | |
| 3ha5 | SFG | Hydroxymycolate synthase MmaA4 | 2.1.1 | 0.442 | |
| 3nx4 | NAP | Putative oxidoreductase | / | 0.442 | |
| 4g3j | VNT | Lanosterol 14-alpha-demethylase | / | 0.442 | |
| 4iar | ERM | 5-hydroxytryptamine receptor 1B | / | 0.442 | |
| 4q73 | FAD | Bifunctional protein PutA | / | 0.442 | |
| 4xwt | U5P | Ribonuclease J | / | 0.442 | |
| 4zj8 | SUV | Orexin receptor type 1 | / | 0.442 | |
| 4ho5 | DAU | Glucose-1-phosphate thymidylyltransferase | / | 0.441 | |
| 4mvh | 2F5 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.441 | |
| 4z61 | ILE_THR_GLN_TYS_TYS | Phytosulfokine receptor 1 | 2.7.11.1 | 0.441 | |
| 1ndz | FR5 | Adenosine deaminase | 3.5.4.4 | 0.440 | |
| 1oc1 | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.440 | |
| 2w2l | NAD | D-mandelate dehydrogenase | / | 0.440 | |
| 3apf | BMW | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.440 | |
| 3h3q | H13 | Collagen type IV alpha-3-binding protein | / | 0.440 |