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 |
|---|---|---|---|
| 3hcr | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3hcr | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 1.000 | |
| 4klr | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.568 | |
| 1drb | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.489 | |
| 3aba | FLI | Cytochrome P450 | / | 0.488 | |
| 4iah | 1DX | Alr2278 protein | / | 0.471 | |
| 1dr3 | HBI | Dihydrofolate reductase | 1.5.1.3 | 0.467 | |
| 4r21 | STR | Cytochrome P450 family 17 polypeptide 2 | / | 0.467 | |
| 2ktd | PUC | Prostaglandin-H2 D-isomerase | 5.3.99.2 | 0.464 | |
| 1fm4 | DXC | Major pollen allergen Bet v 1-L | / | 0.463 | |
| 2iod | MYC | Dihydroflavonol 4-reductase | 1.1.1.219 | 0.463 | |
| 3drc | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.463 | |
| 3p3z | P3Z | Putative cytochrome P450 | / | 0.462 | |
| 3ov4 | EQU | Steroid Delta-isomerase | 5.3.3.1 | 0.461 | |
| 3r7k | FDA | Probable acyl CoA dehydrogenase | / | 0.460 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.459 | |
| 4a83 | DXC | Major pollen allergen Bet v 1-A | / | 0.457 | |
| 4bf2 | STU | Mitogen-activated protein kinase kinase kinase 5 | 2.7.11.25 | 0.455 | |
| 4f4d | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.455 | |
| 3u9e | COA | Lmo1369 protein | / | 0.454 | |
| 3l6j | Z90 | Alr2278 protein | / | 0.453 | |
| 4v2g | ITC | Tetracycline repressor protein class D | / | 0.453 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.452 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.452 | |
| 2q59 | 240 | Peroxisome proliferator-activated receptor gamma | / | 0.452 | |
| 2qd3 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.452 | |
| 1rb3 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.451 | |
| 1t0l | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.451 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.451 | |
| 2dhf | DZF | Dihydrofolate reductase | 1.5.1.3 | 0.449 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.448 | |
| 2qd4 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.447 | |
| 4cd2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.447 | |
| 4iae | 1DX | Alr2278 protein | / | 0.447 | |
| 1mvs | DTM | Dihydrofolate reductase | 1.5.1.3 | 0.446 | |
| 2e9c | B75 | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) | 2.5.1.31 | 0.446 | |
| 2x7h | PFN | Prostaglandin reductase 3 | 1 | 0.446 | |
| 3c0i | 3AM | Peripheral plasma membrane protein CASK | 2.7.11.1 | 0.446 | |
| 4iaq | 2GM | 5-hydroxytryptamine receptor 1B | / | 0.446 | |
| 4iar | ERM | 5-hydroxytryptamine receptor 1B | / | 0.446 | |
| 4uwm | FMN | 3,6-diketocamphane 1,6 monooxygenase | 1.14.13 | 0.446 | |
| 5hs1 | VOR | Lanosterol 14-alpha demethylase | / | 0.446 | |
| 1n83 | CLR | Nuclear receptor ROR-alpha | / | 0.445 | |
| 4glx | 0XS | DNA ligase | 6.5.1.2 | 0.445 | |
| 1g63 | FMN | Epidermin decarboxylase | 4.1.1 | 0.444 | |
| 2y46 | MIV | Mycinamicin IV hydroxylase/epoxidase | / | 0.444 | |
| 4anx | 534 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.443 | |
| 4aw3 | MYV | Mycinamicin IV hydroxylase/epoxidase | / | 0.443 | |
| 4jqh | 1MF | Alr2278 protein | / | 0.443 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.442 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.441 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.441 | |
| 2hrc | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.441 | |
| 2y60 | M8F | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 3akn | 11D | Fatty acid-binding protein, intestinal | / | 0.441 | |
| 4b13 | NHW | Glycylpeptide N-tetradecanoyltransferase | / | 0.441 | |
| 4kla | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.441 | |
| 1dir | NAD | Dihydropteridine reductase | 1.5.1.34 | 0.440 | |
| 2zba | ZBA | Trichothecene 3-O-acetyltransferase | / | 0.440 | |
| 3ey4 | 352 | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.440 |