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 |
|---|---|---|---|
| 3ixp | 834 | Ecdysone receptor |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3ixp | 834 | Ecdysone receptor | / | 1.000 | |
| 2uxo | TAC | HTH-type transcriptional regulator TtgR | / | 0.490 | |
| 1me6 | IVS | Plasmepsin-2 | 3.4.23.39 | 0.487 | |
| 1eio | GCH | Gastrotropin | / | 0.480 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.479 | |
| 1kkq | 471 | Peroxisome proliferator-activated receptor alpha | / | 0.474 | |
| 4a86 | 2AN | Major pollen allergen Bet v 1-A | / | 0.473 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.471 | |
| 5irn | ADP | Nucleotide binding oligomerization domain containing 2 | / | 0.470 | |
| 2xc3 | RT8 | Steroid C26-monooxygenase | 1.14.13.141 | 0.469 | |
| 2qd3 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.468 | |
| 2uxp | CLM | HTH-type transcriptional regulator TtgR | / | 0.468 | |
| 4nbw | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.466 | |
| 3mpj | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.465 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.464 | |
| 1xe6 | 5FP | Plasmepsin-2 | 3.4.23.39 | 0.463 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.462 | |
| 3l6j | Z90 | Alr2278 protein | / | 0.460 | |
| 4jqh | 1MF | Alr2278 protein | / | 0.458 | |
| 1qoq | IGP | Tryptophan synthase alpha chain | / | 0.457 | |
| 4hp8 | NAP | 2-deoxy-D-gluconate 3-dehydrogenase | / | 0.457 | |
| 2y46 | MIV | Mycinamicin IV hydroxylase/epoxidase | / | 0.456 | |
| 2cy0 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.455 | |
| 3gw9 | VNI | Lanosterol 14-alpha-demethylase | / | 0.455 | |
| 1mja | COA | Histone acetyltransferase ESA1 | / | 0.454 | |
| 2qd4 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.454 | |
| 1w6h | TIT | Plasmepsin-2 | 3.4.23.39 | 0.453 | |
| 2ev9 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.452 | |
| 4eyw | L0R | Carnitine O-palmitoyltransferase 2, mitochondrial | 2.3.1.21 | 0.452 | |
| 4g3j | VNT | Lanosterol 14-alpha-demethylase | / | 0.452 | |
| 4na4 | A1R | Poly(ADP-ribose) glycohydrolase | 3.2.1.143 | 0.452 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.452 | |
| 4iae | 1DX | Alr2278 protein | / | 0.451 | |
| 4iar | ERM | 5-hydroxytryptamine receptor 1B | / | 0.451 | |
| 4ips | 1G4 | Mycocyclosin synthase | 1.14.21.9 | 0.451 | |
| 4nbt | NAD | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.451 | |
| 2znn | S44 | Peroxisome proliferator-activated receptor alpha | / | 0.450 | |
| 5hs1 | VOR | Lanosterol 14-alpha demethylase | / | 0.450 | |
| 2rqf | JH3 | Hemolymph juvenile hormone binding protein | / | 0.449 | |
| 3jsw | JAR | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.449 | |
| 1j0x | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.448 | |
| 1rne | C60 | Renin | 3.4.23.15 | 0.448 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.448 | |
| 4boe | CLR | Japanin | / | 0.448 | |
| 4iah | 1DX | Alr2278 protein | / | 0.448 | |
| 4uym | VOR | 14-alpha sterol demethylase Cyp51B | / | 0.448 | |
| 1fy7 | COA | Histone acetyltransferase ESA1 | / | 0.447 | |
| 1mj9 | COA | Histone acetyltransferase ESA1 | / | 0.447 | |
| 1mjb | ACO | Histone acetyltransferase ESA1 | / | 0.447 | |
| 2q5g | 1FA | Peroxisome proliferator-activated receptor delta | / | 0.447 | |
| 2vbd | V10 | Isopenicillin N synthase | 1.21.3.1 | 0.447 | |
| 4jnk | ZHK | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.447 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.446 | |
| 1fm4 | DXC | Major pollen allergen Bet v 1-L | / | 0.446 | |
| 1zdw | FLV | Prenyltransferase | / | 0.446 | |
| 2f4b | EHA | Peroxisome proliferator-activated receptor gamma | / | 0.446 | |
| 2c29 | NAP | Dihydroflavonol 4-reductase | / | 0.445 | |
| 2ejz | SAH | Diphthine synthase | / | 0.445 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.445 | |
| 3h3q | H13 | Collagen type IV alpha-3-binding protein | / | 0.445 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.445 | |
| 4xuh | SFI | Peroxisome proliferator-activated receptor gamma | / | 0.445 | |
| 3dy8 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.444 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.444 | |
| 2hk9 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.443 | |
| 2iko | 7IG | Renin | 3.4.23.15 | 0.443 | |
| 3dys | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.443 | |
| 3dys | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.443 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.443 | |
| 3owa | FAD | Acyl-CoA dehydrogenase | / | 0.443 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.443 | |
| 2vn0 | TDZ | Cytochrome P450 2C8 | / | 0.442 | |
| 2zba | ZBA | Trichothecene 3-O-acetyltransferase | / | 0.442 | |
| 3h3r | 14H | Collagen type IV alpha-3-binding protein | / | 0.442 | |
| 1bvr | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.441 | |
| 2rhg | IGP | Tryptophan synthase alpha chain | / | 0.441 | |
| 3sj7 | NDP | 3-oxoacyl-(Acyl-carrier-protein) reductase, putative | / | 0.441 | |
| 4a81 | DXC | Major pollen allergen Bet v 1-A | / | 0.441 | |
| 4bfz | ZVZ | Pantothenate kinase | 2.7.1.33 | 0.441 | |
| 5b1y | NDP | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.441 | |
| 1c70 | L75 | Protease | / | 0.440 | |
| 4a8v | 2AN | Major pollen allergen Bet v 1-J | / | 0.440 |