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 |
|---|---|---|---|
| 2a1u | FAD | Electron transfer flavoprotein subunit alpha, mitochondrial |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2a1u | FAD | Electron transfer flavoprotein subunit alpha, mitochondrial | / | 1.000 | |
| 1efv | FAD | Electron transfer flavoprotein subunit alpha, mitochondrial | / | 0.652 | |
| 1efp | FAD | Electron transfer flavoprotein subunit alpha | / | 0.632 | |
| 2q61 | SF1 | Peroxisome proliferator-activated receptor gamma | / | 0.485 | |
| 3jyn | NDP | Quinone oxidoreductase | / | 0.478 | |
| 3nx4 | NAP | Putative oxidoreductase | / | 0.476 | |
| 1w4z | NAP | Putative ketoacyl reductase | 1.3.1 | 0.475 | |
| 4m87 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.475 | |
| 3qrw | NDP | Putative ketoacyl reductase | 1.3.1 | 0.474 | |
| 1pr9 | NAP | L-xylulose reductase | 1.1.1.10 | 0.473 | |
| 1b15 | NAE | Alcohol dehydrogenase | 1.1.1.1 | 0.472 | |
| 1mg5 | NAI | Alcohol dehydrogenase | 1.1.1.1 | 0.472 | |
| 1q3q | ANP | Thermosome subunit alpha | / | 0.472 | |
| 4y9l | FAD | Acyl-CoA dehydrogenase family member 11 | / | 0.470 | |
| 2pd7 | FAD | Vivid PAS protein VVD | / | 0.468 | |
| 4jld | ADP | Adenylate kinase | / | 0.468 | |
| 2cmj | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.465 | |
| 4z3d | NDP | Carbonyl reductase [NADPH] 1 | 1.1.1.184 | 0.465 | |
| 1ht8 | 34C | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.463 | |
| 1x7h | NDP | Putative ketoacyl reductase | 1.3.1 | 0.463 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.463 | |
| 1vl8 | NAP | Oxidoreductase, short chain dehydrogenase/reductase family | / | 0.462 | |
| 1yb5 | NAP | Quinone oxidoreductase | 1.6.5.5 | 0.462 | |
| 3iah | NAP | Putative oxoacyl-(Acyl carrier protein) reductase | / | 0.462 | |
| 4wo5 | 324 | Serine/threonine-protein kinase B-raf | 2.7.11.1 | 0.462 | |
| 2i4p | DRH | Peroxisome proliferator-activated receptor gamma | / | 0.461 | |
| 4nr4 | 2LK | CREB-binding protein | / | 0.461 | |
| 2ga9 | AGS | Poly(A) polymerase catalytic subunit | 2.7.7.19 | 0.460 | |
| 2rl1 | UD1 | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | / | 0.460 | |
| 3nwq | 2NC | Gag-Pol polyprotein | 3.4.23.16 | 0.460 | |
| 4dc1 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.460 | |
| 3v4t | UD1 | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | / | 0.459 | |
| 4h4u | NDP | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.459 | |
| 2q5p | 241 | Peroxisome proliferator-activated receptor gamma | / | 0.458 | |
| 3frq | ERY | Erythromycin resistance repressor protein | / | 0.458 | |
| 3ndr | NAD | Pyridoxal 4-dehydrogenase | 1.1.1.107 | 0.458 | |
| 1fm6 | BRL | Peroxisome proliferator-activated receptor gamma | / | 0.457 | |
| 4kzo | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.457 | |
| 8cat | NDP | Catalase | 1.11.1.6 | 0.457 | |
| 2ztm | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.455 | |
| 1o8c | NDP | Probable acrylyl-CoA reductase AcuI | 1.3.1.84 | 0.454 | |
| 3cly | ACP | Fibroblast growth factor receptor 2 | / | 0.454 | |
| 4e37 | NDP | Catalase | 1.11.1.6 | 0.454 | |
| 1b16 | NAQ | Alcohol dehydrogenase | 1.1.1.1 | 0.453 | |
| 3w8f | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.453 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.453 | |
| 1eqh | FLP | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.452 | |
| 1q3g | UDA | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | / | 0.452 | |
| 4a4v | YFD | Peroxisome proliferator-activated receptor gamma | / | 0.452 | |
| 4at0 | FAD | Possible succinate dehydrogenase | / | 0.452 | |
| 1iyz | NDP | Probable quinone oxidoreductase | / | 0.451 | |
| 2c0c | NAP | Prostaglandin reductase 3 | 1 | 0.451 | |
| 2d1c | NAP | Isocitrate dehydrogenase [NADP] | 1.1.1.42 | 0.451 | |
| 2q59 | 240 | Peroxisome proliferator-activated receptor gamma | / | 0.451 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.451 | |
| 1cbr | REA | Cellular retinoic acid-binding protein 1 | / | 0.450 | |
| 3oev | 3OE | Proteasome subunit beta type-5 | 3.4.25.1 | 0.450 | |
| 3oev | 3OE | Proteasome subunit beta type-6 | 3.4.25.1 | 0.450 | |
| 3p6p | A6B | Camphor 5-monooxygenase | 1.14.15.1 | 0.450 | |
| 1rd4 | L08 | Integrin alpha-L | / | 0.449 | |
| 1ybm | NAP | Uncharacterized protein At5g02240 | / | 0.449 | |
| 2i4z | DRH | Peroxisome proliferator-activated receptor gamma | / | 0.449 | |
| 3cwk | REA | Cellular retinoic acid-binding protein 2 | / | 0.449 | |
| 3f47 | I2C | 5,10-methenyltetrahydromethanopterin hydrogenase | 1.12.98.2 | 0.449 | |
| 3iss | EPU | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | / | 0.449 | |
| 4fdp | FAD | Decaprenylphosphoryl-beta-D-ribose oxidase | / | 0.449 | |
| 1t1r | IMB | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.448 | |
| 1xq6 | NAP | Uncharacterized protein At5g02240 | / | 0.448 | |
| 2c3q | GTX | Glutathione S-transferase theta-1 | 2.5.1.18 | 0.448 | |
| 2dte | NAI | Glucose 1-dehydrogenase related protein | / | 0.448 | |
| 3gob | HXX | DdmC | / | 0.448 | |
| 3inm | NDP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.448 | |
| 4h8n | NDP | NADPH-dependent conjugated polyketone reductase C2 | / | 0.448 | |
| 4ike | ADP | Adenylate kinase | / | 0.448 | |
| 4qi5 | FAD | Cellobiose dehydrogenase | / | 0.448 | |
| 1l2t | ATP | Uncharacterized ABC transporter ATP-binding protein MJ0796 | / | 0.447 | |
| 2cmv | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.447 | |
| 2e98 | B29 | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) | 2.5.1.31 | 0.447 | |
| 2xyn | VX6 | Abelson tyrosine-protein kinase 2 | 2.7.10.2 | 0.447 | |
| 3tnl | NAD | Shikimate dehydrogenase (NADP(+)) | / | 0.447 | |
| 3tqh | NDP | Quinone oxidoreductase | / | 0.447 | |
| 4jlo | ADP | Adenylate kinase | / | 0.447 | |
| 5cno | ANP | Epidermal growth factor receptor | 2.7.10.1 | 0.447 | |
| 1hk3 | T44 | Serum albumin | / | 0.446 | |
| 1z0a | GDP | Ras-related protein Rab-2A | / | 0.446 | |
| 2ydx | NAP | Methionine adenosyltransferase 2 subunit beta | / | 0.446 | |
| 3ajr | NAD | NDP-sugar epimerase | / | 0.446 | |
| 3ak4 | NAD | NADH-dependent quinuclidinone reductase | / | 0.446 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.446 | |
| 4fm5 | DF0 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.446 | |
| 4oxy | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.446 | |
| 1iy8 | NAD | Levodione reductase | / | 0.445 | |
| 2ayl | FLP | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.445 | |
| 2yut | NAP | Putative short-chain oxidoreductase | / | 0.445 | |
| 3clu | FAD | Electron transfer flavoprotein subunit alpha | / | 0.445 | |
| 3p6m | DSO | Camphor 5-monooxygenase | 1.14.15.1 | 0.445 | |
| 3p7n | FMN | Light-activated DNA-binding protein EL222 | / | 0.445 | |
| 4cox | IMN | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.445 | |
| 4kl9 | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.445 | |
| 1fdw | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.444 | |
| 1opb | RET | Retinol-binding protein 2 | / | 0.444 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.444 | |
| 4edz | 0O5 | Hematopoietic prostaglandin D synthase | / | 0.444 | |
| 4quv | NDP | Delta(14)-sterol reductase | / | 0.444 | |
| 4u9v | ACO | N-alpha-acetyltransferase 40 | 2.3.1 | 0.444 | |
| 5k2b | ZMA | Adenosine receptor A2a | / | 0.444 | |
| 1pf9 | ADP | 60 kDa chaperonin | / | 0.443 | |
| 2hqp | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.443 | |
| 2q4b | NAP | Uncharacterized protein At5g02240 | / | 0.443 | |
| 2wsb | NAD | Galactitol dehydrogenase | / | 0.443 | |
| 2zb3 | NDP | Prostaglandin reductase 2 | 1.3.1.48 | 0.443 | |
| 3oct | 1N1 | Tyrosine-protein kinase BTK | 2.7.10.2 | 0.443 | |
| 4bcr | WY1 | Peroxisome proliferator-activated receptor alpha | / | 0.443 | |
| 4d0l | 093 | Phosphatidylinositol 4-kinase beta | 2.7.1.67 | 0.443 | |
| 5dp2 | NAP | CurF | / | 0.443 | |
| 5lc1 | NAD | L-threonine 3-dehydrogenase | / | 0.443 | |
| 7cat | NDP | Catalase | 1.11.1.6 | 0.443 | |
| 1b14 | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.442 | |
| 1bcp | ATP | Pertussis toxin subunit 4 | / | 0.442 | |
| 1bcp | ATP | Pertussis toxin subunit 5 | / | 0.442 | |
| 1f12 | 3HC | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.442 | |
| 1fm9 | 570 | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 1jq5 | NAD | Glycerol dehydrogenase | 1.1.1.6 | 0.442 | |
| 1rdw | LAR | Actin, alpha skeletal muscle | / | 0.442 | |
| 2d8a | NAD | L-threonine 3-dehydrogenase | / | 0.442 | |
| 2v3a | FAD | Rubredoxin-NAD(+) reductase | 1.18.1.1 | 0.442 | |
| 3gbu | ATP | Uncharacterized sugar kinase PH1459 | 2.7.1 | 0.442 | |
| 3p19 | NDP | Putative blue fluorescent protein | / | 0.442 | |
| 3p6n | DSO | Camphor 5-monooxygenase | 1.14.15.1 | 0.442 | |
| 3sjz | GNP | Translation initiation factor 2 subunit gamma | / | 0.442 | |
| 3t14 | FAD | Sulfide-quinone reductase | / | 0.442 | |
| 3w8w | FAD | Putative FAD-dependent oxygenase EncM | / | 0.442 | |
| 1sby | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.441 | |
| 4edy | 9PQ | Hematopoietic prostaglandin D synthase | / | 0.441 | |
| 1ae1 | NAP | Tropinone reductase 1 | / | 0.440 | |
| 1jg0 | DDT | Thymidylate synthase | / | 0.440 | |
| 1q4t | 4CO | 4-hydroxybenzoyl-CoA thioesterase | 3.1.2.23 | 0.440 | |
| 2ath | 3EA | Peroxisome proliferator-activated receptor gamma | / | 0.440 | |
| 2h42 | VIA | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.440 | |
| 2hwr | DRD | Peroxisome proliferator-activated receptor gamma | / | 0.440 | |
| 3f46 | I2C | 5,10-methenyltetrahydromethanopterin hydrogenase | 1.12.98.2 | 0.440 | |
| 3r1k | COA | N-acetyltransferase Eis | / | 0.440 | |
| 3r3s | NAD | Putative oxidoreductase | / | 0.440 | |
| 3rj9 | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.440 | |
| 3w8d | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.440 | |
| 4j57 | FAD | Thioredoxin reductase 2 | 1.8.1.9 | 0.440 | |
| 4l2i | FAD | Electron transfer flavoprotein alpha/beta-subunit | / | 0.440 |