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 |
|---|---|---|---|
| 1e2n | RCA | Thymidine kinase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1e2n | RCA | Thymidine kinase | / | 1.000 | |
| 4ivr | N50 | Thymidine kinase | / | 0.556 | |
| 4ivq | I43 | Thymidine kinase | / | 0.491 | |
| 1e2j | THM | Thymidine kinase | / | 0.490 | |
| 2fj1 | CTC | Tetracycline repressor protein class D | / | 0.478 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.476 | |
| 2geu | COK | Pantothenate kinase | 2.7.1.33 | 0.467 | |
| 4bft | ZVT | Pantothenate kinase | 2.7.1.33 | 0.463 | |
| 1h69 | ARH | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.461 | |
| 2y88 | 2ER | Phosphoribosyl isomerase A | 5.3.1.16 | 0.461 | |
| 2x9d | ITC | Tetracycline repressor protein class D | / | 0.460 | |
| 2fm5 | M99 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.458 | |
| 2r8o | T5X | Transketolase 1 | / | 0.458 | |
| 3hl0 | NAD | Maleylacetate reductase | / | 0.457 | |
| 2c29 | NAP | Dihydroflavonol 4-reductase | / | 0.456 | |
| 3dy8 | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.456 | |
| 5dp2 | NAP | CurF | / | 0.456 | |
| 3ha5 | SFG | Hydroxymycolate synthase MmaA4 | 2.1.1 | 0.455 | |
| 4d9e | LCS | D-cysteine desulfhydrase | / | 0.455 | |
| 1dgm | ADN | Adenosine kinase | 2.7.1.20 | 0.454 | |
| 1g63 | FMN | Epidermin decarboxylase | 4.1.1 | 0.454 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.453 | |
| 1eve | E20 | Acetylcholinesterase | 3.1.1.7 | 0.452 | |
| 3hy7 | 097 | A disintegrin and metalloproteinase with thrombospondin motifs 5 | 3.4.24 | 0.452 | |
| 2ktd | PUC | Prostaglandin-H2 D-isomerase | 5.3.99.2 | 0.451 | |
| 3d4s | TIM | Beta-2 adrenergic receptor | / | 0.451 | |
| 4amb | DUD | Putative glycosyl transferase | / | 0.450 | |
| 4gh6 | LUO | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.450 | |
| 5czy | SAM | Eukaryotic huntingtin interacting protein B | / | 0.450 | |
| 2ahr | NAP | Pyrroline-5-carboxylate reductase | / | 0.448 | |
| 2xuk | TZ5 | Acetylcholinesterase | 3.1.1.7 | 0.448 | |
| 2bf4 | FMN | NADPH--cytochrome P450 reductase | / | 0.447 | |
| 3p8z | 36A | Genome polyprotein | 2.1.1.56 | 0.447 | |
| 3q43 | D66 | M1 family aminopeptidase | 3.4.11 | 0.447 | |
| 1hfq | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.446 | |
| 1odc | A8B | Acetylcholinesterase | 3.1.1.7 | 0.446 | |
| 2woe | AR6 | ADP-ribosyl-[dinitrogen reductase] glycohydrolase | 3.2.2.24 | 0.446 | |
| 3djj | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.446 | |
| 4epq | 0RR | Poly(ADP-ribose) glycohydrolase | / | 0.446 | |
| 1me6 | IVS | Plasmepsin-2 | 3.4.23.39 | 0.445 | |
| 4kx6 | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.445 | |
| 1xh6 | R94 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.444 | |
| 1d4d | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.443 | |
| 1h2b | NAJ | NAD-dependent alcohol dehydrogenase | / | 0.443 | |
| 4ara | C56 | Acetylcholinesterase | 3.1.1.7 | 0.443 | |
| 4g2j | 0WF | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.443 | |
| 1xom | CIO | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.442 | |
| 2xfy | ACX | Beta-amylase | 3.2.1.2 | 0.442 | |
| 3dhe | AND | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.442 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.442 | |
| 1n95 | HFP | Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha | / | 0.441 | |
| 1n95 | HFP | Protein farnesyltransferase subunit beta | 2.5.1.58 | 0.441 | |
| 1w4l | GL8 | Acetylcholinesterase | 3.1.1.7 | 0.441 | |
| 3dyl | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.441 | |
| 3dyq | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.441 | |
| 2bu9 | HFV | Isopenicillin N synthase | 1.21.3.1 | 0.440 | |
| 2r8p | T6F | Transketolase 1 | / | 0.440 | |
| 2vtd | LKM | UDP-N-acetylmuramoylalanine--D-glutamate ligase | 6.3.2.9 | 0.440 | |
| 2xug | TZ4 | Acetylcholinesterase | 3.1.1.7 | 0.440 | |
| 3ig6 | 438 | Urokinase-type plasminogen activator | 3.4.21.73 | 0.440 | |
| 4kgk | GTP | Uncharacterized protein | / | 0.440 | |
| 4mqt | 2CU | Muscarinic acetylcholine receptor M2 | / | 0.440 |