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 |
|---|---|---|---|
| 2vq5 | LDP | S-norcoclaurine synthase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2vq5 | LDP | S-norcoclaurine synthase | / | 1.000 | |
| 1cbr | REA | Cellular retinoic acid-binding protein 1 | / | 0.490 | |
| 1kzu | RG1 | Light-harvesting protein B-800/850 alpha chain | / | 0.478 | |
| 1kzu | RG1 | Light-harvesting protein B-800/850 beta chain | / | 0.478 | |
| 2y46 | MIV | Mycinamicin IV hydroxylase/epoxidase | / | 0.476 | |
| 1zeo | C01 | Peroxisome proliferator-activated receptor gamma | / | 0.475 | |
| 1o1v | TCH | Gastrotropin | / | 0.474 | |
| 4jib | 1L6 | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.472 | |
| 4l2i | FAD | Electron transfer flavoprotein alpha/beta-subunit | / | 0.472 | |
| 3ds6 | A17 | Mitogen-activated protein kinase 14 | / | 0.470 | |
| 2i4z | DRH | Peroxisome proliferator-activated receptor gamma | / | 0.469 | |
| 4isk | 1JY | Thymidylate synthase | / | 0.469 | |
| 2vo7 | M05 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.467 | |
| 1osv | CHC | Bile acid receptor | / | 0.465 | |
| 4xxv | NAD | 3-isopropylmalate dehydrogenase | / | 0.465 | |
| 4q73 | FAD | Bifunctional protein PutA | / | 0.464 | |
| 3tmz | 06X | Cytochrome P450 2B4 | 1.14.14.1 | 0.463 | |
| 3b2w | 9NH | Tyrosine-protein kinase Lck | 2.7.10.2 | 0.461 | |
| 3ibd | CPZ | Cytochrome P450 2B6 | 1.14.13 | 0.460 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.460 | |
| 3p6p | A6B | Camphor 5-monooxygenase | 1.14.15.1 | 0.459 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.457 | |
| 3tgu | WF3 | Cytochrome b | / | 0.456 | |
| 5jtb | ZMA | Adenosine receptor A2a | / | 0.456 | |
| 1qnf | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.455 | |
| 2bel | CBO | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.455 | |
| 3th8 | TH9 | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) | 2.5.1.31 | 0.455 | |
| 3cyl | VIT | Basic phospholipase A2 homolog piratoxin-2 | / | 0.454 | |
| 1n83 | CLR | Nuclear receptor ROR-alpha | / | 0.453 | |
| 2hrc | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.453 | |
| 3wxy | COA | Uncharacterized protein | / | 0.453 | |
| 4bcr | WY1 | Peroxisome proliferator-activated receptor alpha | / | 0.453 | |
| 4g31 | 0WH | Eukaryotic translation initiation factor 2-alpha kinase 3 | 2.7.11.1 | 0.453 | |
| 5uvi | ZMA | Adenosine receptor A2a | / | 0.453 | |
| 3l8p | 0CE | Angiopoietin-1 receptor | 2.7.10.1 | 0.452 | |
| 5iua | 6DX | Adenosine receptor A2a | / | 0.452 | |
| 5k2d | ZMA | Adenosine receptor A2a | / | 0.452 | |
| 2rg5 | 279 | Mitogen-activated protein kinase 14 | / | 0.451 | |
| 3h1j | SMA | Cytochrome b | / | 0.451 | |
| 4o8a | FAD | Bifunctional protein PutA | 1.2.1.88 | 0.451 | |
| 5iub | CLR | Adenosine receptor A2a | / | 0.451 | |
| 6cts | CIC | Citrate synthase, mitochondrial | 2.3.3.1 | 0.451 | |
| 1f8g | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.450 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.450 | |
| 4jvf | 17X | Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta | / | 0.450 | |
| 4xgi | NAD | Glutamate dehydrogenase | / | 0.450 | |
| 3b6z | CO7 | Enoyl reductase LovC | 1 | 0.449 | |
| 4hee | 14R | Peroxisome proliferator-activated receptor gamma | / | 0.449 | |
| 1tj0 | FAD | Bifunctional protein PutA | 1.5.5.2 | 0.448 | |
| 3a1l | 2CC | Cytochrome P450 | / | 0.448 | |
| 3qlr | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 3w0i | O11 | Vitamin D3 receptor | / | 0.448 | |
| 4fk3 | 325 | Serine/threonine-protein kinase B-raf | 2.7.11.1 | 0.448 | |
| 5k2c | ZMA | Adenosine receptor A2a | / | 0.448 | |
| 3vn2 | TLS | Peroxisome proliferator-activated receptor gamma | / | 0.447 | |
| 4axa | RKD | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.447 | |
| 5bp9 | SAH | Putative methyltransferase protein | / | 0.447 | |
| 5k2b | ZMA | Adenosine receptor A2a | / | 0.447 | |
| 1k7l | 544 | Peroxisome proliferator-activated receptor alpha | / | 0.446 | |
| 2zlc | VDX | Vitamin D3 receptor | / | 0.446 | |
| 2znn | S44 | Peroxisome proliferator-activated receptor alpha | / | 0.446 | |
| 3flk | NAI | Tartrate dehydrogenase/decarboxylase | 1.1.1.93 | 0.446 | |
| 4kio | G5K | Tyrosine-protein kinase ITK/TSK | 2.7.10.2 | 0.446 | |
| 5br4 | NAD | Lactaldehyde reductase | 1.1.1.77 | 0.446 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.445 | |
| 1ot7 | CHC | Bile acid receptor | / | 0.445 | |
| 1y0s | 331 | Peroxisome proliferator-activated receptor delta | / | 0.445 | |
| 3mvl | 38P | Mitogen-activated protein kinase 14 | / | 0.445 | |
| 2i4p | DRH | Peroxisome proliferator-activated receptor gamma | / | 0.444 | |
| 3p6o | ETG | Camphor 5-monooxygenase | 1.14.15.1 | 0.444 | |
| 3w5t | LHP | Vitamin D3 receptor | / | 0.444 | |
| 3zbn | COA | 3-ketoacyl-CoA thiolase-like protein | / | 0.444 | |
| 4jvb | 1M0 | Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta | / | 0.444 | |
| 4lxh | C1E | Alpha/beta hydrolase fold | / | 0.444 | |
| 1nkz | RG1 | Light-harvesting protein B-800/850 alpha chain | / | 0.443 | |
| 1nkz | RG1 | Light-harvesting protein B-800/850 beta chain | / | 0.443 | |
| 1veb | I05 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.443 | |
| 1w84 | L12 | Mitogen-activated protein kinase 14 | / | 0.443 | |
| 2cbr | A80 | Cellular retinoic acid-binding protein 1 | / | 0.443 | |
| 2h12 | CMX | Citrate synthase | / | 0.443 | |
| 2ozu | ACO | Histone acetyltransferase KAT6A | / | 0.443 | |
| 3e8e | G98 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.443 | |
| 3p6m | DSO | Camphor 5-monooxygenase | 1.14.15.1 | 0.443 | |
| 4i8v | BHF | Cytochrome P450 1A1 | 1.14.14.1 | 0.443 | |
| 4nmd | FDA | Bifunctional protein PutA | / | 0.443 | |
| 4wlu | NAD | Malate dehydrogenase, mitochondrial | 1.1.1.37 | 0.443 | |
| 1diu | BDM | Dihydrofolate reductase | 1.5.1.3 | 0.442 | |
| 1dkf | BMS | Retinoic acid receptor alpha | / | 0.442 | |
| 2c1a | I5S | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.442 | |
| 2hw2 | RFP | Rifampin ADP-ribosyl transferase | / | 0.442 | |
| 2lf1 | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.442 | |
| 3gyu | DL7 | Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily | / | 0.442 | |
| 4a0m | NAD | Betaine aldehyde dehydrogenase, chloroplastic | 1.2.1.8 | 0.442 | |
| 4nr4 | 2LK | CREB-binding protein | / | 0.442 | |
| 1fm4 | DXC | Major pollen allergen Bet v 1-L | / | 0.441 | |
| 2ath | 3EA | Peroxisome proliferator-activated receptor gamma | / | 0.441 | |
| 2i4j | DRJ | Peroxisome proliferator-activated receptor gamma | / | 0.441 | |
| 3e8c | G96 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.441 | |
| 3etg | NDP | Glutamate dehydrogenase 1, mitochondrial | 1.4.1.3 | 0.441 | |
| 3gc8 | B45 | Mitogen-activated protein kinase 11 | 2.7.11.24 | 0.441 | |
| 3hv5 | R24 | Mitogen-activated protein kinase 14 | / | 0.441 | |
| 3p6n | DSO | Camphor 5-monooxygenase | 1.14.15.1 | 0.441 | |
| 3w8w | FAD | Putative FAD-dependent oxygenase EncM | / | 0.441 | |
| 3zia | ATP | ATP synthase subunit alpha, mitochondrial | / | 0.441 | |
| 4i3v | NAD | Aldehyde dehydrogenase (NAD+) | / | 0.441 | |
| 4j6c | STR | Cytochrome P450 monooxygenase | / | 0.441 | |
| 5k2a | ZMA | Adenosine receptor A2a | / | 0.441 | |
| 1dis | BDM | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 1iyz | NDP | Probable quinone oxidoreductase | / | 0.440 | |
| 2azy | CHD | Phospholipase A2, major isoenzyme | 3.1.1.4 | 0.440 | |
| 2ibz | SMA | Cytochrome b | / | 0.440 | |
| 2vzm | NRB | Cytochrome P450 monooxygenase PikC | / | 0.440 | |
| 3vrw | YS5 | Vitamin D3 receptor | / | 0.440 |