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 |
|---|---|---|---|
| 1xqp | 8HG | N-glycosylase/DNA lyase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1xqp | 8HG | N-glycosylase/DNA lyase | / | 1.000 | |
| 1fw0 | KAI | Glutamate receptor 2 | / | 0.494 | |
| 3dy8 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.491 | |
| 1cjt | FOK | Adenylate cyclase type 2 | / | 0.487 | |
| 1cjt | FOK | Adenylate cyclase type 5 | / | 0.487 | |
| 3dyl | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.487 | |
| 3dys | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.486 | |
| 4g2l | 0WL | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.485 | |
| 2y6f | M9F | Isopenicillin N synthase | 1.21.3.1 | 0.483 | |
| 3jsi | WTC | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.478 | |
| 3k3h | BYE | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.476 | |
| 1tl7 | FOK | Adenylate cyclase type 2 | / | 0.475 | |
| 1tl7 | FOK | Adenylate cyclase type 5 | / | 0.475 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.474 | |
| 3dyl | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.472 | |
| 3dy8 | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.471 | |
| 3dyq | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.471 | |
| 3jsw | JAR | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.470 | |
| 4h6p | FMN | Chromate reductase | / | 0.470 | |
| 3dys | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.469 | |
| 1lbb | KAI | Glutamate receptor 2 | / | 0.468 | |
| 2yy2 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.468 | |
| 3c14 | FOK | Adenylate cyclase type 2 | / | 0.460 | |
| 3c14 | FOK | Adenylate cyclase type 5 | / | 0.460 | |
| 4g2j | 0WF | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.460 | |
| 3dyn | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.459 | |
| 2v13 | C40 | Renin | 3.4.23.15 | 0.458 | |
| 1b2l | NDC | Alcohol dehydrogenase | 1.1.1.1 | 0.457 | |
| 1cju | FOK | Adenylate cyclase type 2 | / | 0.457 | |
| 1cju | FOK | Adenylate cyclase type 5 | / | 0.457 | |
| 4ead | 0NP | Thymidine phosphorylase | 2.4.2.4 | 0.457 | |
| 1cul | FOK | Adenylate cyclase type 2 | / | 0.456 | |
| 1cul | FOK | Adenylate cyclase type 5 | / | 0.456 | |
| 2ejz | SAH | Diphthine synthase | / | 0.456 | |
| 3jun | AJD | Phenazine biosynthesis protein A/B | / | 0.456 | |
| 2qta | TDP | Pyruvate dehydrogenase E1 component | 1.2.4.1 | 0.455 | |
| 3zei | AWH | O-acetylserine sulfhydrylase | / | 0.455 | |
| 4hs4 | FMN | Chromate reductase | / | 0.454 | |
| 1h60 | STR | Pentaerythritol tetranitrate reductase | / | 0.453 | |
| 1obn | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.453 | |
| 1tl7 | ONM | Adenylate cyclase type 2 | / | 0.452 | |
| 1tl7 | ONM | Adenylate cyclase type 5 | / | 0.452 | |
| 3c35 | KAI | Glutamate receptor ionotropic, kainate 1 | / | 0.452 | |
| 4x5f | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.452 | |
| 4z61 | ILE_THR_GLN_TYS_TYS | Phytosulfokine receptor 1 | 2.7.11.1 | 0.452 | |
| 1cjv | FOK | Adenylate cyclase type 2 | / | 0.450 | |
| 1cjv | FOK | Adenylate cyclase type 5 | / | 0.450 | |
| 3bl7 | DD1 | m7GpppX diphosphatase | 3.6.1.59 | 0.450 | |
| 4a4o | 664 | Serine/threonine-protein kinase PLK1 | 2.7.11.21 | 0.450 | |
| 2bxq | IMN | Serum albumin | / | 0.449 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.449 | |
| 4qa2 | SHH | Histone deacetylase 8 | 3.5.1.98 | 0.449 | |
| 4gh6 | LUO | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.448 | |
| 3zc3 | FAD | Ferredoxin--NADP reductase | 1.18.1.2 | 0.447 | |
| 1zdw | FLV | Prenyltransferase | / | 0.445 | |
| 2rqf | JH3 | Hemolymph juvenile hormone binding protein | / | 0.445 | |
| 1e90 | MYC | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.444 | |
| 3lfm | 3DT | Alpha-ketoglutarate-dependent dioxygenase FTO | / | 0.443 | |
| 3n3z | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.443 | |
| 3wv9 | FEG | Hmd co-occurring protein HcgE | / | 0.443 | |
| 1wsv | THH | Aminomethyltransferase, mitochondrial | / | 0.442 | |
| 2nmt | MIM | Glycylpeptide N-tetradecanoyltransferase | 2.3.1.97 | 0.442 | |
| 2wo7 | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.442 | |
| 3exh | TPP | Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial | 1.2.4.1 | 0.442 | |
| 3exh | TPP | Pyruvate dehydrogenase E1 component subunit beta, mitochondrial | 1.2.4.1 | 0.442 | |
| 3o73 | O73 | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.442 | |
| 3p2o | NAD | Bifunctional protein FolD | / | 0.442 | |
| 4i13 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.442 | |
| 1k7f | IAV | Tryptophan synthase alpha chain | / | 0.441 | |
| 2uxo | TAC | HTH-type transcriptional regulator TtgR | / | 0.441 | |
| 2vbp | VB1 | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 1nqu | RDL | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.440 | |
| 2ed3 | SAH | Diphthine synthase | / | 0.440 | |
| 2g1n | 1IG | Renin | 3.4.23.15 | 0.440 | |
| 3ddw | 055 | Glycogen phosphorylase, liver form | 2.4.1.1 | 0.440 | |
| 3pvc | FAD | tRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC | / | 0.440 | |
| 4fgc | PQ0 | NADPH-dependent 7-cyano-7-deazaguanine reductase | 1.7.1.13 | 0.440 |