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 |
|---|---|---|---|
| 2gr2 | APR | Ferredoxin reductase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2gr2 | APR | Ferredoxin reductase | / | 1.000 | |
| 2gr0 | ADP | Ferredoxin reductase | / | 0.711 | |
| 1f3p | NAD | Ferredoxin reductase | / | 0.600 | |
| 4h4w | NAP | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.532 | |
| 2yvj | NAI | Ferredoxin reductase | / | 0.518 | |
| 4h4y | NAP | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.483 | |
| 1gil | GSP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.476 | |
| 1q8u | H52 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.471 | |
| 1u7h | NAD | Putative ornithine cyclodeaminase | / | 0.468 | |
| 3n7u | NAD | Formate dehydrogenase, chloroplastic/mitochondrial | / | 0.467 | |
| 4emi | NAD | Toluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component | 1.18.1.3 | 0.467 | |
| 2gqt | FAD | UDP-N-acetylenolpyruvoylglucosamine reductase | / | 0.462 | |
| 3ely | SAH | Methyltransferase | / | 0.462 | |
| 3cge | FAD | Coenzyme A disulfide reductase | / | 0.459 | |
| 4opg | FDA | Conserved Archaeal protein | / | 0.458 | |
| 4oh4 | ANP | Protein BRASSINOSTEROID INSENSITIVE 1 | 2.7.10.1 | 0.457 | |
| 1ydt | IQB | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.456 | |
| 3qbh | QBH | Beta-secretase 1 | 3.4.23.46 | 0.456 | |
| 1kp3 | ATP | Argininosuccinate synthase | 6.3.4.5 | 0.455 | |
| 1ydr | IQP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.455 | |
| 3jsk | AHZ | Thiamine thiazole synthase | / | 0.455 | |
| 4ntd | FAD | Thioredoxin reductase | / | 0.455 | |
| 4qoe | FAD | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.455 | |
| 1kor | ANP | Argininosuccinate synthase | / | 0.454 | |
| 2jkv | NAP | 6-phosphogluconate dehydrogenase, decarboxylating | 1.1.1.44 | 0.454 | |
| 1djq | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.453 | |
| 3cgd | FAD | Coenzyme A disulfide reductase | / | 0.453 | |
| 3hl0 | NAD | Maleylacetate reductase | / | 0.453 | |
| 1o94 | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.452 | |
| 2b9y | FAD | Putative aminooxidase | / | 0.452 | |
| 4h3y | SAH | tRNA (guanine-N(1)-)-methyltransferase | / | 0.452 | |
| 4kx6 | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.452 | |
| 4m5p | FMN | NADPH dehydrogenase | / | 0.452 | |
| 5ahs | FAD | Acyl-CoA dehydrogenase | / | 0.452 | |
| 2jdt | I5S | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.450 | |
| 2uzw | SS4 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.450 | |
| 2xbj | XBJ | Serine/threonine-protein kinase Chk2 | 2.7.11.1 | 0.450 | |
| 3ohh | 3HH | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 4h50 | NAP | Biphenyl dioxygenase ferredoxin reductase subunit | / | 0.450 | |
| 1j21 | ATP | Argininosuccinate synthase | / | 0.449 | |
| 1p9w | ANP | Type II secretion system protein E | / | 0.449 | |
| 3cgd | NAD | Coenzyme A disulfide reductase | / | 0.449 | |
| 1djn | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.448 | |
| 1gia | GSP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.447 | |
| 2d0o | ADP | Diol dehydratase-reactivating factor alpha subunit | / | 0.447 | |
| 2tmd | ADP | Trimethylamine dehydrogenase | 1.5.8.2 | 0.447 | |
| 3ime | BZ2 | Pantothenate synthetase | 6.3.2.1 | 0.447 | |
| 3isj | A8D | Pantothenate synthetase | 6.3.2.1 | 0.447 | |
| 1n2i | PAJ | Pantothenate synthetase | 6.3.2.1 | 0.446 | |
| 2xvm | SAH | Tellurite methyltransferase | 2.1.1.265 | 0.446 | |
| 2ylz | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.446 | |
| 2ym2 | FAD | Phenylacetone monooxygenase | 1.14.13.92 | 0.446 | |
| 5c3j | FAD | Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial | / | 0.446 | |
| 1d4d | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.444 | |
| 2c0c | NAP | Prostaglandin reductase 3 | 1 | 0.444 | |
| 2cdu | ADP | NADH oxidase | / | 0.444 | |
| 2iqg | F2I | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 2q0l | FAD | Thioredoxin reductase | 1.8.1.9 | 0.444 | |
| 2ylr | NAP | Phenylacetone monooxygenase | 1.14.13.92 | 0.444 | |
| 3lsi | FAD | Pyranose 2-oxidase | / | 0.444 | |
| 4qai | FMN | NADPH dehydrogenase | / | 0.444 | |
| 1hld | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.443 | |
| 2q4w | FAD | Cytokinin dehydrogenase 7 | 1.5.99.12 | 0.443 | |
| 3cgt | BCD | Cyclomaltodextrin glucanotransferase | 2.4.1.19 | 0.443 | |
| 3fri | SAH | 16S rRNA methylase | / | 0.443 | |
| 3tne | RIT | Candidapepsin-1 | 3.4.23.24 | 0.443 | |
| 3dm6 | 757 | Beta-secretase 1 | 3.4.23.46 | 0.442 | |
| 3gbu | ATP | Uncharacterized sugar kinase PH1459 | 2.7.1 | 0.442 | |
| 3ms4 | 21N | Glycogen phosphorylase, muscle form | 2.4.1.1 | 0.442 | |
| 2eph | ASP_TRP_ASN | Fructose-bisphosphate aldolase | 4.1.2.13 | 0.441 | |
| 3djj | FAD | Glutathione reductase, mitochondrial | 1.8.1.7 | 0.441 | |
| 1t7k | BH0 | Gag-Pol polyprotein | 3.4.23.16 | 0.440 | |
| 3qv1 | NAD | Glyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic | 1.2.1.13 | 0.440 | |
| 3up4 | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.440 | |
| 4de5 | 0JD | Pantothenate synthetase | 6.3.2.1 | 0.440 |