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 |
|---|---|---|---|
| 4zbr | NPS | Serum albumin |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4zbr | NPS | Serum albumin | / | 1.000 | |
| 2bxg | IBP | Serum albumin | / | 0.557 | |
| 4ot2 | NPS | Serum albumin | / | 0.545 | |
| 2bxe | 1FL | Serum albumin | / | 0.516 | |
| 3jqp | A2P | Ferredoxin--NADP reductase, apicoplast | / | 0.474 | |
| 3opd | HIE | Heat shock protein 83 | / | 0.471 | |
| 4be7 | ATP | Type I restriction enzyme EcoR124II R protein | 3.1.21.3 | 0.469 | |
| 4ydu | ADP | tRNA N6-adenosine threonylcarbamoyltransferase | / | 0.462 | |
| 2i4p | DRH | Peroxisome proliferator-activated receptor gamma | / | 0.459 | |
| 4i3z | ADP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.459 | |
| 2f4b | EHA | Peroxisome proliferator-activated receptor gamma | / | 0.458 | |
| 2q4b | NAP | Uncharacterized protein At5g02240 | / | 0.458 | |
| 1ybm | NAP | Uncharacterized protein At5g02240 | / | 0.457 | |
| 2j7t | 274 | Serine/threonine-protein kinase 10 | 2.7.11.1 | 0.457 | |
| 3nwy | GTP | Uridylate kinase | / | 0.457 | |
| 4ewn | 0VR | Imidazole glycerol phosphate synthase subunit HisF | 4.1.3 | 0.457 | |
| 3s5w | NAP | L-ornithine N(5)-monooxygenase | / | 0.456 | |
| 3sjz | GNP | Translation initiation factor 2 subunit gamma | / | 0.456 | |
| 1fm9 | 570 | Peroxisome proliferator-activated receptor gamma | / | 0.455 | |
| 1tdn | FAD | L-amino-acid oxidase | 1.4.3.2 | 0.455 | |
| 1xq6 | NAP | Uncharacterized protein At5g02240 | / | 0.455 | |
| 4n9w | GDP | Phosphatidyl-myo-inositol mannosyltransferase | 2.4.1.57 | 0.455 | |
| 1ict | T44 | Transthyretin | / | 0.454 | |
| 3frq | ERY | Erythromycin resistance repressor protein | / | 0.453 | |
| 2oby | NAP | Quinone oxidoreductase PIG3 | 1 | 0.452 | |
| 3stu | DK3 | Methylketone synthase I | / | 0.452 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.451 | |
| 2ix5 | FAD | Acyl-coenzyme A oxidase 4, peroxisomal | 1.3.3.6 | 0.451 | |
| 3cbs | R12 | Cellular retinoic acid-binding protein 2 | / | 0.450 | |
| 4bk3 | FAD | Probable salicylate monooxygenase | / | 0.450 | |
| 1db1 | VDX | Vitamin D3 receptor | / | 0.449 | |
| 2cbs | R13 | Cellular retinoic acid-binding protein 2 | / | 0.449 | |
| 2nnh | REA | Cytochrome P450 2C8 | / | 0.449 | |
| 3ojl | NAD | Cap5O | / | 0.449 | |
| 3x2v | ATP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.449 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.449 | |
| 3g6w | GTP | Uracil phosphoribosyltransferase | 2.4.2.9 | 0.448 | |
| 3kpk | FAD | Sulfide-quinone reductase | / | 0.448 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.448 | |
| 4j99 | ACP | Fibroblast growth factor receptor 2 | / | 0.448 | |
| 1fm6 | BRL | Peroxisome proliferator-activated receptor gamma | / | 0.447 | |
| 2cdu | FAD | NADH oxidase | / | 0.447 | |
| 3flk | NAI | Tartrate dehydrogenase/decarboxylase | 1.1.1.93 | 0.447 | |
| 3zc3 | NAP | Ferredoxin--NADP reductase | 1.18.1.2 | 0.447 | |
| 5iqh | GNP | Bifunctional AAC/APH | 2.3.1 | 0.447 | |
| 2gn9 | UPG | UDP-N-acetylglucosamine 4,6-dehydratase (inverting) | 4.2.1.115 | 0.446 | |
| 3t2z | FAD | Sulfide-quinone reductase | / | 0.446 | |
| 3cp9 | C19 | Vascular endothelial growth factor receptor 2 | 2.7.10.1 | 0.445 | |
| 3stw | 2TD | Methylketone synthase I | / | 0.445 | |
| 3w5p | 4OA | Vitamin D3 receptor | / | 0.445 | |
| 2hfp | NSI | Peroxisome proliferator-activated receptor gamma | / | 0.444 | |
| 2qfx | NDP | Isocitrate dehydrogenase [NADP], mitochondrial | 1.1.1.42 | 0.444 | |
| 4i58 | FAD | Cyclohexylamine Oxidase | / | 0.444 | |
| 4nr4 | 2LK | CREB-binding protein | / | 0.444 | |
| 1kgj | FL8 | Transthyretin | / | 0.443 | |
| 3l0l | HC3 | Nuclear receptor ROR-gamma | / | 0.443 | |
| 3umv | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.443 | |
| 4dpm | COA | Malonyl-CoA reductase | 1.2.1.75 | 0.443 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.443 | |
| 1mc5 | AHE | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.442 | |
| 2bxi | AZQ | Serum albumin | / | 0.442 | |
| 2q5g | 1FA | Peroxisome proliferator-activated receptor delta | / | 0.442 | |
| 3p2e | SAH | 16S rRNA (adenine(1408)-N(1))-methyltransferase | 2.1.1.180 | 0.442 | |
| 3pjt | C2E | Diguanylate cyclase/phosphodiesterase | / | 0.442 | |
| 3vjh | J35 | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 4z64 | ILE_THR_GLN_TYS_TYS | Phytosulfokine receptor 1 | 2.7.11.1 | 0.442 | |
| 1j39 | UPG | DNA beta-glucosyltransferase | / | 0.441 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.441 | |
| 2bab | FAD | Putative aminooxidase | / | 0.441 | |
| 2cah | NDP | Catalase | 1.11.1.6 | 0.441 | |
| 2i4j | DRJ | Peroxisome proliferator-activated receptor gamma | / | 0.441 | |
| 3kq7 | KQ7 | Mitogen-activated protein kinase 14 | / | 0.441 | |
| 3sz0 | FAD | Sulfide-quinone reductase | / | 0.441 | |
| 3vrw | YS5 | Vitamin D3 receptor | / | 0.441 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.441 | |
| 4i3w | NAD | Aldehyde dehydrogenase (NAD+) | / | 0.441 | |
| 4jib | 1L6 | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.441 | |
| 5kgp | ACO | Predicted acetyltransferase | / | 0.441 | |
| 2cjm | ATP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.440 | |
| 2hyy | STI | Tyrosine-protein kinase ABL1 | 2.7.10.2 | 0.440 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.440 | |
| 4hee | 14R | Peroxisome proliferator-activated receptor gamma | / | 0.440 |