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 |
|---|---|---|---|
| 5c6c | CMP | cGMP-dependent protein kinase 2 | 2.7.11.12 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 5c6c | CMP | cGMP-dependent protein kinase 2 | 2.7.11.12 | 1.000 | |
| 5c8w | PCG | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.547 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.484 | |
| 5dp2 | NAP | CurF | / | 0.481 | |
| 3ada | NAD | Subunit alpha of sarocosine oxidase | / | 0.468 | |
| 1lb9 | DNQ | Glutamate receptor 2 | / | 0.463 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.463 | |
| 1pq9 | 44B | Oxysterols receptor LXR-beta | / | 0.460 | |
| 1d3d | BZT | Prothrombin | 3.4.21.5 | 0.458 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.458 | |
| 1pqc | 444 | Oxysterols receptor LXR-beta | / | 0.455 | |
| 1d3p | BT3 | Prothrombin | 3.4.21.5 | 0.454 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.454 | |
| 1x1c | SAH | C-20 methyltransferase | / | 0.453 | |
| 2gjn | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.453 | |
| 3fhx | PXL | Pyridoxal kinase | 2.7.1.35 | 0.453 | |
| 3nmp | PYV | Abscisic acid receptor PYL2 | / | 0.453 | |
| 2anm | CDO | Prothrombin | 3.4.21.5 | 0.452 | |
| 1nm6 | L86 | Prothrombin | 3.4.21.5 | 0.451 | |
| 2a94 | AP0 | L-lactate dehydrogenase | 1.1.1.27 | 0.450 | |
| 2cf9 | 348 | Prothrombin | 3.4.21.5 | 0.450 | |
| 2cn0 | F25 | Prothrombin | 3.4.21.5 | 0.450 | |
| 4bfs | ZVS | Pantothenate kinase | 2.7.1.33 | 0.450 | |
| 4qys | PLR | Tryptophan synthase beta chain 2 | 4.2.1.20 | 0.449 | |
| 2ewm | NAD | (S)-1-Phenylethanol dehydrogenase | 1.1.1.311 | 0.448 | |
| 3c36 | KAI | Glutamate receptor ionotropic, kainate 1 | / | 0.448 | |
| 3od0 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.448 | |
| 4uug | PXG | Branched-chain amino acid aminotransferase, putative | / | 0.448 | |
| 2gvc | FAD | Thiol-specific monooxygenase | 1.14.13 | 0.446 | |
| 2uag | UMA | UDP-N-acetylmuramoylalanine--D-glutamate ligase | 6.3.2.9 | 0.446 | |
| 3slk | NDP | Polyketide synthase extender module 2 | / | 0.446 | |
| 2vbp | VB1 | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 2xvi | FAD | Putative flavin-containing monooxygenase | / | 0.445 | |
| 3eku | CY9 | Actin-5C | / | 0.445 | |
| 3l77 | NJP | Short-chain alcohol dehydrogenase | / | 0.445 | |
| 3uoz | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.445 | |
| 1d4p | BPP | Prothrombin | 3.4.21.5 | 0.444 | |
| 1oc1 | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.444 | |
| 1dhi | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.443 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.443 | |
| 3cr0 | 809 | Wee1-like protein kinase | 2.7.10.2 | 0.442 | |
| 5irn | ADP | Nucleotide binding oligomerization domain containing 2 | / | 0.442 | |
| 4cdm | FO1 | Deoxyribodipyrimidine photolyase | / | 0.441 | |
| 2qd4 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.440 | |
| 4gxs | 0YS | Glutamate receptor 2 | / | 0.440 |