sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
Cavities 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
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 1yw8 | A75 | Methionine aminopeptidase 2 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 1yw8 | A75 | Methionine aminopeptidase 2 | / | 1.000 | |
| 2ea2 | F77 | Methionine aminopeptidase 2 | / | 0.717 | |
| 1r5g | AO1 | Methionine aminopeptidase 2 | / | 0.662 | |
| 1yw7 | A41 | Methionine aminopeptidase 2 | / | 0.654 | |
| 1r58 | AO5 | Methionine aminopeptidase 2 | / | 0.645 | |
| 1yw9 | A84 | Methionine aminopeptidase 2 | / | 0.634 | |
| 2ga2 | A19 | Methionine aminopeptidase 2 | / | 0.611 | |
| 2ea4 | F79 | Methionine aminopeptidase 2 | / | 0.581 | |
| 2oaz | I96 | Methionine aminopeptidase 2 | / | 0.555 | |
| 1r5h | AO2 | Methionine aminopeptidase 2 | / | 0.537 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.517 | |
| 3aez | GDP | Pantothenate kinase | 2.7.1.33 | 0.501 | |
| 1qzy | TDE | Methionine aminopeptidase 2 | / | 0.500 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.490 | |
| 3h3t | 16H | Collagen type IV alpha-3-binding protein | / | 0.490 | |
| 4bft | ZVT | Pantothenate kinase | 2.7.1.33 | 0.476 | |
| 3opx | U5P | Suppressor of disruption of TFIIS | / | 0.469 | |
| 4bfz | ZVZ | Pantothenate kinase | 2.7.1.33 | 0.466 | |
| 3frk | TQP | QdtB | / | 0.460 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.460 | |
| 3dyl | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.458 | |
| 3h3s | H15 | Collagen type IV alpha-3-binding protein | / | 0.458 | |
| 4bfw | ZVW | Pantothenate kinase | 2.7.1.33 | 0.458 | |
| 4kla | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.458 | |
| 3b1d | PLS | BetaC-S lyase | / | 0.457 | |
| 3dyq | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.456 | |
| 3h3q | H13 | Collagen type IV alpha-3-binding protein | / | 0.456 | |
| 4g2j | 0WF | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.454 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.453 | |
| 4lnb | ED5 | CaaX farnesyltransferase beta subunit Ram1 | / | 0.451 | |
| 3dyn | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.450 | |
| 2geu | COK | Pantothenate kinase | 2.7.1.33 | 0.449 | |
| 3dy8 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.449 | |
| 3n3z | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.449 | |
| 1vot | HUP | Acetylcholinesterase | 3.1.1.7 | 0.448 | |
| 2zsb | ADP | Pantothenate kinase | 2.7.1.33 | 0.448 | |
| 3af1 | GDP | Pantothenate kinase | 2.7.1.33 | 0.448 | |
| 1ps9 | MDE | 2,4-dienoyl-CoA reductase | 1.3.1.34 | 0.447 | |
| 2yy2 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.447 | |
| 3dys | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.447 | |
| 3h3r | 14H | Collagen type IV alpha-3-binding protein | / | 0.447 | |
| 1o9b | NAI | Quinate/shikimate dehydrogenase | / | 0.445 | |
| 1w6r | GNT | Acetylcholinesterase | 3.1.1.7 | 0.445 | |
| 2gev | COK | Pantothenate kinase | 2.7.1.33 | 0.445 | |
| 2xuk | TZ5 | Acetylcholinesterase | 3.1.1.7 | 0.444 | |
| 3dyl | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.443 | |
| 4a30 | QMI | Glycylpeptide N-tetradecanoyltransferase | / | 0.443 | |
| 4gh6 | LUO | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.443 | |
| 3uzw | NAP | 3-oxo-5-beta-steroid 4-dehydrogenase | / | 0.442 | |
| 2j9f | THV | 2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial | 1.2.4.4 | 0.441 | |
| 2j9f | THV | 2-oxoisovalerate dehydrogenase subunit beta, mitochondrial | 1.2.4.4 | 0.441 | |
| 4lh7 | 1X8 | DNA ligase | / | 0.441 | |
| 1kw6 | BPY | Biphenyl-2,3-diol 1,2-dioxygenase | 1.13.11.39 | 0.440 | |
| 1rkw | PNT | HTH-type transcriptional regulator QacR | / | 0.440 | |
| 3e34 | ED1 | Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha | / | 0.440 | |
| 3e34 | ED1 | Protein farnesyltransferase subunit beta | 2.5.1.58 | 0.440 |