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 |
|---|---|---|---|
| 3lfm | 3DT | Alpha-ketoglutarate-dependent dioxygenase FTO |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3lfm | 3DT | Alpha-ketoglutarate-dependent dioxygenase FTO | / | 1.000 | |
| 4ie6 | UN9 | Alpha-ketoglutarate-dependent dioxygenase FTO | / | 0.519 | |
| 4qkn | JMS | Alpha-ketoglutarate-dependent dioxygenase FTO | / | 0.516 | |
| 4zs2 | FLU | Alpha-ketoglutarate-dependent dioxygenase FTO | / | 0.506 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.500 | |
| 4jnk | ZHK | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.487 | |
| 1cqp | 803 | Integrin alpha-L | / | 0.484 | |
| 1eio | GCH | Gastrotropin | / | 0.479 | |
| 1lwi | NAP | 3-alpha-hydroxysteroid dehydrogenase | 1.1.1.50 | 0.475 | |
| 2fgj | ATP | Alpha-hemolysin translocation ATP-binding protein HlyB | / | 0.475 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.470 | |
| 2x7h | PFN | Prostaglandin reductase 3 | 1 | 0.469 | |
| 2ejz | SAH | Diphthine synthase | / | 0.467 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.461 | |
| 3fhx | PXL | Pyridoxal kinase | 2.7.1.35 | 0.461 | |
| 3oqk | S52 | Renin | 3.4.23.15 | 0.461 | |
| 1cul | FOK | Adenylate cyclase type 2 | / | 0.460 | |
| 1cul | FOK | Adenylate cyclase type 5 | / | 0.460 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.460 | |
| 2ft9 | CHD | Fatty acid-binding protein 2, liver | / | 0.459 | |
| 4m49 | 22Y | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.459 | |
| 2uxo | TAC | HTH-type transcriptional regulator TtgR | / | 0.458 | |
| 2fgk | ATP | Alpha-hemolysin translocation ATP-binding protein HlyB | / | 0.456 | |
| 2bxm | IMN | Serum albumin | / | 0.455 | |
| 2vn0 | TDZ | Cytochrome P450 2C8 | / | 0.455 | |
| 4k6f | NAP | Putative Acetoacetyl-CoA reductase | / | 0.455 | |
| 5b1y | NDP | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.455 | |
| 3oqf | S51 | Renin | 3.4.23.15 | 0.454 | |
| 3slk | NDP | Polyketide synthase extender module 2 | / | 0.454 | |
| 4anx | 534 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.454 | |
| 3hl0 | NAD | Maleylacetate reductase | / | 0.453 | |
| 4xsv | C5P | Ethanolamine-phosphate cytidylyltransferase | 2.7.7.14 | 0.453 | |
| 1ja0 | FMN | NADPH--cytochrome P450 reductase | / | 0.452 | |
| 1oc1 | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.452 | |
| 1blz | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.451 | |
| 1qiq | ACC | Isopenicillin N synthase | 1.21.3.1 | 0.451 | |
| 1rne | C60 | Renin | 3.4.23.15 | 0.451 | |
| 2y6f | M9F | Isopenicillin N synthase | 1.21.3.1 | 0.451 | |
| 4gh6 | LUO | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.451 | |
| 1bvr | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.449 | |
| 2e9a | B28 | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) | 2.5.1.31 | 0.449 | |
| 1hyg | NAP | L-2-hydroxycarboxylate dehydrogenase (NAD(P)(+)) | / | 0.448 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.448 | |
| 3g72 | A6T | Renin | 3.4.23.15 | 0.447 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.447 | |
| 4anw | O92 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.447 | |
| 3dy8 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.446 | |
| 3iw1 | ASD | Steroid C26-monooxygenase | 1.14.13.141 | 0.446 | |
| 3otw | COA | Phosphopantetheine adenylyltransferase | / | 0.446 | |
| 4wso | NAD | Probable nicotinate-nucleotide adenylyltransferase | / | 0.446 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.445 | |
| 1jpa | ANP | Ephrin type-B receptor 2 | 2.7.10.1 | 0.444 | |
| 2c54 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.444 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.444 | |
| 4qx5 | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.444 | |
| 1t2c | NAI | L-lactate dehydrogenase | 1.1.1.27 | 0.443 | |
| 2gjn | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.443 | |
| 4frk | DWD | Beta-secretase 1 | 3.4.23.46 | 0.443 | |
| 4ipw | 1G7 | Mycocyclosin synthase | 1.14.21.9 | 0.443 | |
| 4ktl | 1CQ | Cytochrome P450 | / | 0.443 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.442 | |
| 2rhr | EMO | Putative ketoacyl reductase | 1.3.1 | 0.442 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.442 | |
| 3nmp | PYV | Abscisic acid receptor PYL2 | / | 0.442 | |
| 3vuc | HHE | Renin | 3.4.23.15 | 0.442 | |
| 4a81 | DXC | Major pollen allergen Bet v 1-A | / | 0.442 | |
| 4ewn | 0VR | Imidazole glycerol phosphate synthase subunit HisF | 4.1.3 | 0.442 | |
| 1txt | CAA | HMG-CoA synthase | / | 0.441 | |
| 2ktd | PUC | Prostaglandin-H2 D-isomerase | 5.3.99.2 | 0.441 | |
| 3c1y | 2BA | DNA integrity scanning protein DisA | / | 0.441 | |
| 3gob | HXX | DdmC | / | 0.441 | |
| 4du8 | 2P0 | Mevalonate diphosphate decarboxylase | / | 0.441 | |
| 1kt8 | ILP | Branched-chain-amino-acid aminotransferase, mitochondrial | 2.6.1.42 | 0.440 | |
| 2bxo | OPB | Serum albumin | / | 0.440 | |
| 2xvv | 9DN | Serum albumin | / | 0.440 | |
| 2z4s | ADP | Chromosomal replication initiator protein DnaA | / | 0.440 | |
| 3in6 | FMN | Uncharacterized protein | / | 0.440 | |
| 3q3c | NAD | NAD-dependent L-serine dehydrogenase | / | 0.440 | |
| 4bfz | ZVZ | Pantothenate kinase | 2.7.1.33 | 0.440 | |
| 4fxy | 0W2 | Neurolysin, mitochondrial | 3.4.24.16 | 0.440 | |
| 4i6g | FAD | Cryptochrome-2 | / | 0.440 |