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 |
|---|---|---|---|
| 5i4n | ATP | Tyrosine-protein kinase JAK2 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 5i4n | ATP | Tyrosine-protein kinase JAK2 | / | 1.000 | |
| 4fvq | ATP | Tyrosine-protein kinase JAK2 | / | 0.593 | |
| 4fvr | ATP | Tyrosine-protein kinase JAK2 | / | 0.502 | |
| 4oa9 | ANP | Protein BRASSINOSTEROID INSENSITIVE 1 | 2.7.10.1 | 0.464 | |
| 5cnn | ANP | Epidermal growth factor receptor | 2.7.10.1 | 0.463 | |
| 3jun | AJD | Phenazine biosynthesis protein A/B | / | 0.462 | |
| 4ji9 | 1M3 | Tyrosine-protein kinase JAK2 | / | 0.462 | |
| 5iqi | GNP | Bifunctional AAC/APH | 2.3.1 | 0.462 | |
| 1nhh | ANP | DNA mismatch repair protein MutL | / | 0.460 | |
| 3fhy | ATP | Pyridoxal kinase | 2.7.1.35 | 0.460 | |
| 3zkb | ANP | DNA gyrase subunit B | / | 0.460 | |
| 4xj3 | GTP | Cyclic GMP-AMP synthase | / | 0.460 | |
| 4jld | ADP | Adenylate kinase | / | 0.459 | |
| 2pd7 | FAD | Vivid PAS protein VVD | / | 0.458 | |
| 2ou5 | FMN | Pyridoxamine 5'-phosphate oxidase-related FMN-binding protein | / | 0.456 | |
| 2yxu | ATP | Pyridoxal kinase | 2.7.1.35 | 0.456 | |
| 4pl4 | ADP | Serine/threonine-protein kinase/endoribonuclease IRE1 | 2.7.11.1 | 0.456 | |
| 1qmz | ATP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.455 | |
| 2pdt | FAD | Vivid PAS protein VVD | / | 0.455 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.455 | |
| 4jay | NAP | UDP-N-acetylenolpyruvoylglucosamine reductase | / | 0.455 | |
| 3f3s | NAD | Lambda-crystallin homolog | / | 0.454 | |
| 3juq | AJD | Phenazine biosynthesis protein A/B | / | 0.454 | |
| 4nbt | NAD | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.454 | |
| 3keu | ATP | Pyridoxal kinase | 2.7.1.35 | 0.453 | |
| 4fxf | ATP | Pyruvate kinase PKM | 2.7.1.40 | 0.453 | |
| 5cno | ANP | Epidermal growth factor receptor | 2.7.10.1 | 0.453 | |
| 1okk | GCP | Signal recognition particle protein | / | 0.452 | |
| 1okk | GCP | Signal recognition particle receptor FtsY | / | 0.452 | |
| 4xw5 | ATP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.452 | |
| 5c03 | AGS | Non-receptor tyrosine-protein kinase TYK2 | 2.7.10.2 | 0.451 | |
| 1hb3 | SCV | Isopenicillin N synthase | 1.21.3.1 | 0.450 | |
| 2qo7 | ANP | Ephrin type-A receptor 3 | 2.7.10.1 | 0.450 | |
| 2xy3 | DUP | SPBc2 prophage-derived deoxyuridine 5'-triphosphate nucleotidohydrolase YosS | 3.6.1.23 | 0.450 | |
| 3o3p | GDD | Glycosyl transferase, family 2 | / | 0.450 | |
| 4en4 | ATP | Pyridoxal kinase | 2.7.1.35 | 0.450 | |
| 1hk2 | T44 | Serum albumin | / | 0.449 | |
| 2x3j | ATP | AcsD | / | 0.449 | |
| 3cop | ADP | Glycogen synthase | 2.4.1.21 | 0.449 | |
| 4typ | AP5 | Adenylate kinase | / | 0.449 | |
| 1t0l | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.448 | |
| 4dh7 | ANP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.448 | |
| 4ike | ADP | Adenylate kinase | / | 0.448 | |
| 2d1c | NAP | Isocitrate dehydrogenase [NADP] | 1.1.1.42 | 0.447 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.447 | |
| 1dxy | NAD | D-2-hydroxyisocaproate dehydrogenase | 1.1.1 | 0.445 | |
| 1kvs | UPG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.445 | |
| 2c54 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.445 | |
| 2w02 | ATP | AcsD | / | 0.445 | |
| 3i59 | N6R | CRP-like cAMP-activated global transcriptional regulator | / | 0.445 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.445 | |
| 4m69 | ANP | Receptor-interacting serine/threonine-protein kinase 3 | 2.7.11.1 | 0.445 | |
| 5l3r | GCP | Cell division protein FtsY homolog, chloroplastic | / | 0.445 | |
| 1fnn | ADP | ORC1-type DNA replication protein | / | 0.444 | |
| 3d8v | UD1 | Bifunctional protein GlmU | / | 0.444 | |
| 4fl3 | ANP | Tyrosine-protein kinase SYK | 2.7.10.2 | 0.444 | |
| 4qny | ANP | Mitogen activated protein kinase, putative | / | 0.444 | |
| 1i24 | UPG | UDP-sulfoquinovose synthase, chloroplastic | 3.13.1.1 | 0.443 | |
| 1j1c | ADP | Glycogen synthase kinase-3 beta | 2.7.11.26 | 0.443 | |
| 1w49 | APC | NTPase P4 | / | 0.443 | |
| 2oap | ANP | Type II secretion system protein (GspE-2) | / | 0.443 | |
| 3qwf | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.443 | |
| 2z7q | ACP | Ribosomal protein S6 kinase alpha-1 | 2.7.11.1 | 0.442 | |
| 5eg3 | ACP | Fibroblast growth factor receptor 2 | / | 0.442 | |
| 2vcm | M11 | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 2zkj | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.441 | |
| 3ed1 | GA3 | Gibberellin receptor GID1 | / | 0.441 | |
| 3hko | ANP | Calcium/calmodulin-dependent protein kinase with a kinase domain and 2 calmodulin-like EF hands | / | 0.441 | |
| 3i60 | E86 | Mitogen-activated protein kinase 1 | 2.7.11.24 | 0.441 | |
| 3kji | ADP | CO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC | / | 0.441 | |
| 1kvr | NAD | UDP-glucose 4-epimerase | 5.1.3.2 | 0.440 | |
| 1w5t | ADP | ORC1-type DNA replication protein 2 | / | 0.440 | |
| 3pb3 | SAH | 16S rRNA (adenine(1408)-N(1))-methyltransferase | 2.1.1.180 | 0.440 | |
| 4dja | FAD | (6-4) photolyase | / | 0.440 |