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 |
|---|---|---|---|
| 3il1 | B5D | Glutamate receptor 2 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3il1 | B5D | Glutamate receptor 2 | / | 1.000 | |
| 2xx9 | 1NF | Glutamate receptor 2 | / | 0.637 | |
| 3ik6 | HCZ | Glutamate receptor 2 | / | 0.557 | |
| 3bbr | BHY | Glutamate receptor 2 | / | 0.534 | |
| 2xhd | 7T9 | Glutamate receptor 2 | / | 0.524 | |
| 3kgc | LY7 | Glutamate receptor 2 | / | 0.508 | |
| 1y0s | 331 | Peroxisome proliferator-activated receptor delta | / | 0.488 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.476 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.474 | |
| 1k6p | XN3 | Gag-Pol polyprotein | 3.4.23.16 | 0.470 | |
| 1e3e | NAI | Alcohol dehydrogenase 4 | 1.1.1.1 | 0.467 | |
| 1zrz | BI1 | Protein kinase C iota type | 2.7.11.13 | 0.466 | |
| 2p5u | NAD | UDP-glucose 4-epimerase | / | 0.466 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.461 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.459 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.458 | |
| 5a3b | APR | SIR2 family protein | / | 0.457 | |
| 1teh | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.456 | |
| 4ge7 | 0K5 | Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial | 2.6.1.39 | 0.456 | |
| 2nry | STU | Interleukin-1 receptor-associated kinase 4 | 2.7.11.1 | 0.455 | |
| 5a3c | NAD | SIR2 family protein | / | 0.455 | |
| 1kkq | 471 | Peroxisome proliferator-activated receptor alpha | / | 0.454 | |
| 1k7l | 544 | Peroxisome proliferator-activated receptor alpha | / | 0.453 | |
| 2hyd | ADP | Putative multidrug export ATP-binding/permease protein SAV1866 | 3.6.3 | 0.453 | |
| 1tqf | 32P | Beta-secretase 1 | 3.4.23.46 | 0.452 | |
| 3a1n | NAD | NDP-sugar epimerase | / | 0.452 | |
| 1lbc | CYZ | Glutamate receptor 2 | / | 0.451 | |
| 1mjb | ACO | Histone acetyltransferase ESA1 | / | 0.451 | |
| 2igo | FAD | Pyranose 2-oxidase | / | 0.451 | |
| 2npa | MMB | Peroxisome proliferator-activated receptor alpha | / | 0.451 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.450 | |
| 1jio | DEB | 6-deoxyerythronolide B hydroxylase | / | 0.450 | |
| 1qnf | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.450 | |
| 1r2j | FAD | FkbI | / | 0.450 | |
| 1zem | NAD | Xylitol dehydrogenase | / | 0.450 | |
| 3drc | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.450 | |
| 2giv | ACO | Histone acetyltransferase KAT8 | / | 0.449 | |
| 3rn8 | RN8 | Glutamate receptor 2 | / | 0.449 | |
| 3sp6 | IL2 | Peroxisome proliferator-activated receptor alpha | / | 0.449 | |
| 4q72 | FAD | Bifunctional protein PutA | / | 0.449 | |
| 1fy7 | COA | Histone acetyltransferase ESA1 | / | 0.448 | |
| 1gg5 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.448 | |
| 2c54 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.448 | |
| 2znq | 401 | Peroxisome proliferator-activated receptor delta | / | 0.448 | |
| 3to6 | LYS_CMC | Histone acetyltransferase ESA1 | / | 0.448 | |
| 4anx | 534 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.448 | |
| 1bw9 | NAD | Phenylalanine dehydrogenase | / | 0.447 | |
| 1k6c | MK1 | Gag-Pol polyprotein | 3.4.23.16 | 0.447 | |
| 1k6t | XN1 | Gag-Pol polyprotein | 3.4.23.16 | 0.447 | |
| 1mj9 | COA | Histone acetyltransferase ESA1 | / | 0.447 | |
| 3t3c | 017 | Gag-Pol polyprotein | 3.4.23.16 | 0.447 | |
| 4dh6 | 0KN | Beta-secretase 1 | 3.4.23.46 | 0.447 | |
| 4iql | FMN | Enoyl-(Acyl-carrier-protein) reductase II | / | 0.447 | |
| 4yr9 | NAD | L-threonine 3-dehydrogenase, mitochondrial | 1.1.1.103 | 0.447 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.446 | |
| 1mp0 | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.446 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.446 | |
| 3c1y | 2BA | DNA integrity scanning protein DisA | / | 0.446 | |
| 1ma0 | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.445 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.445 | |
| 2cmj | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.445 | |
| 3nwq | 2NC | Gag-Pol polyprotein | 3.4.23.16 | 0.445 | |
| 3slk | NDP | Polyketide synthase extender module 2 | / | 0.445 | |
| 4dre | NAI | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.445 | |
| 4gl4 | NAI | Alcohol dehydrogenase class-3 | / | 0.445 | |
| 3nwx | KVS | Gag-Pol polyprotein | 3.4.23.16 | 0.444 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.444 | |
| 5adh | APR | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.444 | |
| 2ign | FAD | Pyranose 2-oxidase | / | 0.443 | |
| 2y8l | ADP | 5'-AMP-activated protein kinase subunit gamma-1 | / | 0.443 | |
| 2iko | 7IG | Renin | 3.4.23.15 | 0.442 | |
| 3bg7 | FAD | Pyranose 2-oxidase | / | 0.441 | |
| 3gw9 | VNI | Lanosterol 14-alpha-demethylase | / | 0.441 | |
| 3tne | RIT | Candidapepsin-1 | 3.4.23.24 | 0.441 | |
| 4g3j | VNT | Lanosterol 14-alpha-demethylase | / | 0.441 | |
| 4n9i | PCG | Catabolite expression activator | / | 0.441 | |
| 3uzw | NAP | 3-oxo-5-beta-steroid 4-dehydrogenase | / | 0.440 | |
| 4jji | NAD | Alcohol dehydrogenase class-3 | / | 0.440 | |
| 5dp2 | NAP | CurF | / | 0.440 |