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 |
|---|---|---|---|
| 1cg1 | IMO | Adenylosuccinate synthetase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1cg1 | IMO | Adenylosuccinate synthetase | / | 1.000 | |
| 1nht | PGS | Adenylosuccinate synthetase | / | 0.746 | |
| 1qf4 | RPD | Adenylosuccinate synthetase | / | 0.680 | |
| 1qf5 | RPL | Adenylosuccinate synthetase | / | 0.659 | |
| 1cg0 | IMO | Adenylosuccinate synthetase | / | 0.636 | |
| 1ksz | PGS | Adenylosuccinate synthetase | / | 0.626 | |
| 1cg3 | IMO | Adenylosuccinate synthetase | / | 0.620 | |
| 1p9b | IMO | Adenylosuccinate synthetase | / | 0.602 | |
| 2gcq | DOI | Adenylosuccinate synthetase | / | 0.565 | |
| 1lon | IMO | Adenylosuccinate synthetase isozyme 1 | / | 0.554 | |
| 1cg4 | IMO | Adenylosuccinate synthetase | / | 0.547 | |
| 2dgn | DOI | Adenylosuccinate synthetase isozyme 1 | / | 0.530 | |
| 1xkv | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.491 | |
| 1u7t | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.480 | |
| 3vfq | AR6 | Poly [ADP-ribose] polymerase 14 | 2.4.2.30 | 0.480 | |
| 5idw | NAP | Short-chain dehydrogenase/reductase SDR | / | 0.480 | |
| 3d3w | NAP | L-xylulose reductase | 1.1.1.10 | 0.478 | |
| 2giv | ACO | Histone acetyltransferase KAT8 | / | 0.477 | |
| 1ma0 | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.474 | |
| 2o23 | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.473 | |
| 3bgx | TMP | Thymidylate synthase | / | 0.473 | |
| 4l4x | NDP | AmphI | / | 0.471 | |
| 1e3s | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.469 | |
| 3vdq | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.468 | |
| 2wsb | NAD | Galactitol dehydrogenase | / | 0.465 | |
| 2c29 | NAP | Dihydroflavonol 4-reductase | / | 0.464 | |
| 1vbi | NAD | Malate/L-lactate dehydrogenase family protein | / | 0.463 | |
| 1x7h | NDP | Putative ketoacyl reductase | 1.3.1 | 0.463 | |
| 4o8a | FAD | Bifunctional protein PutA | 1.2.1.88 | 0.463 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.462 | |
| 3qlr | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.460 | |
| 3qwb | NDP | Probable quinone oxidoreductase | 1.6.5.5 | 0.460 | |
| 3ijr | NAD | Oxidoreductase, short chain dehydrogenase/reductase family | / | 0.459 | |
| 1ia1 | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.458 | |
| 4bfs | ZVS | Pantothenate kinase | 2.7.1.33 | 0.458 | |
| 1ae1 | NAP | Tropinone reductase 1 | / | 0.457 | |
| 3bhi | NAP | Carbonyl reductase [NADPH] 1 | 1.1.1.184 | 0.457 | |
| 4nxu | ADP | Mitochondrial dynamics protein MID51 | / | 0.457 | |
| 1f8f | NAD | Benzyl alcohol dehydrogenase | / | 0.456 | |
| 1p0f | NAP | NADP-dependent alcohol dehydrogenase | 1.1.1.2 | 0.456 | |
| 3p62 | FMN | Pentaerythritol tetranitrate reductase | / | 0.456 | |
| 4bcr | WY1 | Peroxisome proliferator-activated receptor alpha | / | 0.456 | |
| 2d1y | NAD | Oxidoreductase, short-chain dehydrogenase/reductase family | / | 0.455 | |
| 3pcr | GTP | ADP-ribosylation factor 6 | / | 0.455 | |
| 3s55 | NAD | Putative short-chain dehydrogenase/reductase | / | 0.455 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.454 | |
| 4j7x | NAP | Sepiapterin reductase | 1.1.1.153 | 0.454 | |
| 4yai | NAI | C alpha-dehydrogenase | / | 0.454 | |
| 5c3j | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.454 | |
| 1f0x | FAD | D-lactate dehydrogenase | 1.1.1.28 | 0.453 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.453 | |
| 2gdz | NAD | 15-hydroxyprostaglandin dehydrogenase [NAD(+)] | 1.1.1.141 | 0.453 | |
| 2nru | T12 | Interleukin-1 receptor-associated kinase 4 | 2.7.11.1 | 0.453 | |
| 2y0m | ACO | Histone acetyltransferase KAT8 | / | 0.453 | |
| 3d8b | ADP | Fidgetin-like protein 1 | 3.6.4 | 0.453 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.453 | |
| 3o26 | NDP | Salutaridine reductase | / | 0.453 | |
| 3w8e | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.453 | |
| 3b6z | CO7 | Enoyl reductase LovC | 1 | 0.452 | |
| 3gwd | FAD | Cyclohexanone monooxygenase | / | 0.452 | |
| 3kjs | NAP | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.452 | |
| 3uce | NDP | Dehydrogenase | / | 0.452 | |
| 3up5 | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.452 | |
| 4yag | NAI | C alpha-dehydrogenase | / | 0.452 | |
| 5jsf | NAD | 17-beta-hydroxysteroid dehydrogenase 14 | 1.1.1 | 0.452 | |
| 1ipe | NDP | Tropinone reductase 2 | 1.1.1.236 | 0.451 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.451 | |
| 3kjr | NAP | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.451 | |
| 3tqc | ADP | Pantothenate kinase | / | 0.451 | |
| 4i5e | NAP | Alclohol dehydrogenase/short-chain dehydrogenase | / | 0.451 | |
| 1e5q | NDP | Saccharopine dehydrogenase [NADP(+), L-glutamate-forming] | 1.5.1.10 | 0.449 | |
| 1h73 | ANP | Homoserine kinase | 2.7.1.39 | 0.449 | |
| 2b4q | NAP | Rhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase | 1.1.1.100 | 0.449 | |
| 2gjl | FMN | Nitronate monooxygenase | 1.13.12.16 | 0.449 | |
| 3c3n | FMN | Dihydroorotate dehydrogenase (fumarate) | 1.3.98.1 | 0.449 | |
| 3ing | NDP | Homoserine dehydrogenase related protein | / | 0.449 | |
| 3kyb | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.449 | |
| 4d5g | FAD | Cyclohexane-1,2-dione hydrolase | 3.7.1.11 | 0.449 | |
| 4j7u | NAP | Sepiapterin reductase | 1.1.1.153 | 0.449 | |
| 4ynt | FDA | Glucose oxidase, putative | / | 0.449 | |
| 2c3q | GTX | Glutathione S-transferase theta-1 | 2.5.1.18 | 0.448 | |
| 2gmh | FAD | Electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial | 1.5.5.1 | 0.448 | |
| 2voj | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.448 | |
| 2yut | NAP | Putative short-chain oxidoreductase | / | 0.448 | |
| 3r83 | Z14 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.448 | |
| 1hdr | NAD | Dihydropteridine reductase | 1.5.1.34 | 0.447 | |
| 1qlh | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.447 | |
| 3f3s | NAD | Lambda-crystallin homolog | / | 0.447 | |
| 3tne | RIT | Candidapepsin-1 | 3.4.23.24 | 0.447 | |
| 4egh | 0OY | Heat shock protein HSP 90-alpha | / | 0.447 | |
| 5kjc | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.447 | |
| 1ju2 | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.446 | |
| 1pr9 | NAP | L-xylulose reductase | 1.1.1.10 | 0.446 | |
| 2g5c | NAD | Prephenate dehydrogenase | / | 0.446 | |
| 2hdh | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.446 | |
| 2q4b | NAP | Uncharacterized protein At5g02240 | / | 0.446 | |
| 3fpz | AHZ | Thiamine thiazole synthase | / | 0.446 | |
| 3o0o | 5AD | Vitamin B12-dependent ribonucleotide reductase | / | 0.446 | |
| 3q71 | AR6 | Poly [ADP-ribose] polymerase 14 | 2.4.2.30 | 0.446 | |
| 3qls | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.446 | |
| 4ozt | P1A | Ecdysone receptor, putative | / | 0.446 | |
| 4tm4 | FDA | KtzI | / | 0.446 | |
| 1jue | FMN | Dihydroorotate dehydrogenase A (fumarate) | 1.3.98.1 | 0.445 | |
| 1qjf | ACS | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 1sby | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.445 | |
| 2wes | FAD | Tryptophan 5-halogenase | / | 0.445 | |
| 4a9u | A9U | Serine/threonine-protein kinase Chk2 | 2.7.11.1 | 0.445 | |
| 4fj2 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.445 | |
| 4z3d | NDP | Carbonyl reductase [NADPH] 1 | 1.1.1.184 | 0.445 | |
| 4z87 | 5GP | Inosine-5'-monophosphate dehydrogenase | / | 0.445 | |
| 5e5h | 0T1 | Succinyl-CoA:acetate CoA-transferase | / | 0.445 | |
| 1kvk | ATP | Mevalonate kinase | 2.7.1.36 | 0.444 | |
| 2ekp | NAD | 2-deoxy-D-gluconate 3-dehydrogenase | / | 0.444 | |
| 3tox | NAP | Putative oxidoreductase | / | 0.444 | |
| 3u4c | NDP | NADPH-dependent reductase BacG | / | 0.444 | |
| 4a0r | DTB | Bifunctional dethiobiotin synthetase/7,8-diamino-pelargonic acid aminotransferase, mitochondrial | 6.3.3.3 | 0.444 | |
| 4dpw | AGS | Mevalonate diphosphate decarboxylase | / | 0.444 | |
| 4nd4 | NAD | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.444 | |
| 4opg | FDA | Conserved Archaeal protein | / | 0.444 | |
| 1f8w | FAD | NADH peroxidase | 1.11.1.1 | 0.443 | |
| 1g6k | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.443 | |
| 1x1b | SAH | C-20 methyltransferase | / | 0.443 | |
| 2ztm | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.443 | |
| 3d7k | D7K | Benzaldehyde lyase | / | 0.443 | |
| 3gqv | NAP | Enoyl reductase LovC | 1 | 0.443 | |
| 4dc0 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.443 | |
| 4hp8 | NAP | 2-deoxy-D-gluconate 3-dehydrogenase | / | 0.443 | |
| 4k6m | SAH | Genome polyprotein | / | 0.443 | |
| 1i2b | NAD | UDP-sulfoquinovose synthase, chloroplastic | 3.13.1.1 | 0.442 | |
| 1mj9 | COA | Histone acetyltransferase ESA1 | / | 0.442 | |
| 2b4t | AES | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.442 | |
| 2g8y | NAD | Hydroxycarboxylate dehydrogenase B | / | 0.442 | |
| 3uyl | TYD | Probable NDP-rhamnosyltransferase | / | 0.442 | |
| 1drh | NAP | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 1fm9 | 570 | Peroxisome proliferator-activated receptor gamma | / | 0.441 | |
| 1nvm | NAD | Acetaldehyde dehydrogenase | 1.2.1.10 | 0.441 | |
| 2a92 | NAI | L-lactate dehydrogenase | / | 0.441 | |
| 2ag5 | NAD | 3-hydroxybutyrate dehydrogenase type 2 | / | 0.441 | |
| 2hsd | NAD | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.441 | |
| 2ivi | ACW | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 2yvg | NAD | Ferredoxin reductase | / | 0.441 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.441 | |
| 3ndr | NAD | Pyridoxal 4-dehydrogenase | 1.1.1.107 | 0.441 | |
| 3p19 | NDP | Putative blue fluorescent protein | / | 0.441 | |
| 4die | C5P | Cytidylate kinase | / | 0.441 | |
| 4eud | COA | Succinyl-CoA:acetate CoA-transferase | / | 0.441 | |
| 4nd2 | A3D | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.441 | |
| 4nd3 | NAD | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.441 | |
| 2bfq | AR6 | [Protein ADP-ribosylglutamate] hydrolase AF_1521 | 3.2.2 | 0.440 | |
| 2i7p | ACO | Pantothenate kinase 3 | 2.7.1.33 | 0.440 | |
| 2jah | NDP | Clavaldehyde dehydrogenase | / | 0.440 | |
| 2wo9 | 068 | Macrophage metalloelastase | 3.4.24.65 | 0.440 | |
| 3dhe | AND | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.440 | |
| 3hbb | NAP | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.440 | |
| 3ik6 | HCZ | Glutamate receptor 2 | / | 0.440 | |
| 3k13 | THH | 5-methyltetrahydrofolate-homocysteine methyltransferase | / | 0.440 | |
| 3k8q | 22A | Purine nucleoside phosphorylase | 2.4.2.1 | 0.440 | |
| 4dsh | FDA | Uncharacterized protein | / | 0.440 | |
| 4tlx | FDA | KtzI | / | 0.440 | |
| 5jla | NAD | Putative short-chain dehydrogenase/reductase | / | 0.440 |