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 |
|---|---|---|---|
| 5cpb | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 5cpb | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 1.000 | |
| 4bii | PYW | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.625 | |
| 4oxy | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.606 | |
| 2aqh | NAI | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.605 | |
| 3uic | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.593 | |
| 1bvr | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.589 | |
| 3of2 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.575 | |
| 3oew | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.574 | |
| 4zju | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.567 | |
| 3oey | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.561 | |
| 4dre | NAI | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.558 | |
| 4dqu | NAI | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.557 | |
| 2aqi | NAI | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.553 | |
| 1zid | ZID | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.548 | |
| 2nv6 | ZID | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.547 | |
| 2b36 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.545 | |
| 2aqk | NAI | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.544 | |
| 1p44 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.540 | |
| 2aq8 | NAI | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.538 | |
| 4nbt | NAD | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.532 | |
| 2idz | ZID | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.531 | |
| 2ie0 | ZID | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.531 | |
| 2pr2 | DG1 | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.527 | |
| 2wyv | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.527 | |
| 4m87 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.527 | |
| 1eny | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.526 | |
| 4dti | NAI | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.526 | |
| 4fw8 | NAI | 3-oxoacyl-(Acyl-carrier-protein) reductase | / | 0.523 | |
| 5koi | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.519 | |
| 1enz | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.514 | |
| 2ntj | P1H | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.509 | |
| 4bqp | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.508 | |
| 2ntv | P1H | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.506 | |
| 2b35 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.504 | |
| 2b37 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.503 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.500 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.498 | |
| 2d1y | NAD | Oxidoreductase, short-chain dehydrogenase/reductase family | / | 0.496 | |
| 1v35 | NAI | Enoyl-ACP reductase | / | 0.490 | |
| 1g6k | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.486 | |
| 2ieb | ZID | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.481 | |
| 4rlh | 0WE | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.478 | |
| 1dhr | NAD | Dihydropteridine reductase | 1.5.1.34 | 0.477 | |
| 5hs1 | VOR | Lanosterol 14-alpha demethylase | / | 0.476 | |
| 4yer | ADP | Antibiotic ABC transporter, ATP-binding protein, putative | / | 0.474 | |
| 2vn0 | TDZ | Cytochrome P450 2C8 | / | 0.473 | |
| 4bgi | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.471 | |
| 3nug | NAD | Pyridoxal 4-dehydrogenase | 1.1.1.107 | 0.469 | |
| 4trn | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.467 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.466 | |
| 1xe6 | 5FP | Plasmepsin-2 | 3.4.23.39 | 0.465 | |
| 4g7g | VFV | Lanosterol 14-alpha-demethylase | / | 0.465 | |
| 4dc0 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.464 | |
| 1u7t | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.462 | |
| 3gwf | NAP | Cyclohexanone monooxygenase | / | 0.462 | |
| 4ktl | 1CQ | Cytochrome P450 | / | 0.462 | |
| 4m83 | ERY | Oleandomycin glycosyltransferase | 2.4.1 | 0.461 | |
| 5cp4 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.461 | |
| 1w4z | NAP | Putative ketoacyl reductase | 1.3.1 | 0.460 | |
| 2bxm | IMN | Serum albumin | / | 0.459 | |
| 2nnh | REA | Cytochrome P450 2C8 | / | 0.459 | |
| 5jsf | NAD | 17-beta-hydroxysteroid dehydrogenase 14 | 1.1.1 | 0.458 | |
| 2he5 | NDP | Aldo-keto reductase family 1 member C21 | 1.1.1 | 0.457 | |
| 3fwg | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.457 | |
| 4uym | VOR | 14-alpha sterol demethylase Cyp51B | / | 0.457 | |
| 1cul | FOK | Adenylate cyclase type 2 | / | 0.456 | |
| 1cul | FOK | Adenylate cyclase type 5 | / | 0.456 | |
| 2cpp | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.456 | |
| 3lfc | Z86 | Mitogen-activated protein kinase 14 | / | 0.456 | |
| 4hp8 | NAP | 2-deoxy-D-gluconate 3-dehydrogenase | / | 0.456 | |
| 4px9 | ADP | ATP-dependent RNA helicase DDX3X | 3.6.4.13 | 0.456 | |
| 2iod | MYC | Dihydroflavonol 4-reductase | 1.1.1.219 | 0.455 | |
| 2wsb | NAD | Galactitol dehydrogenase | / | 0.455 | |
| 3cpp | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.455 | |
| 3p3z | P3Z | Putative cytochrome P450 | / | 0.455 | |
| 1dz6 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.454 | |
| 2rhr | EMO | Putative ketoacyl reductase | 1.3.1 | 0.454 | |
| 4a81 | DXC | Major pollen allergen Bet v 1-A | / | 0.454 | |
| 4k6f | NAP | Putative Acetoacetyl-CoA reductase | / | 0.454 | |
| 3ruk | AER | Steroid 17-alpha-hydroxylase/17,20 lyase | / | 0.453 | |
| 2c29 | NAP | Dihydroflavonol 4-reductase | / | 0.452 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.452 | |
| 4ips | 1G4 | Mycocyclosin synthase | 1.14.21.9 | 0.452 | |
| 3oaf | OAG | Dihydrofolate reductase | 1.5.1.3 | 0.451 | |
| 3s1d | ZIR | Cytokinin dehydrogenase 1 | 1.5.99.12 | 0.451 | |
| 4bms | NAP | Alclohol dehydrogenase/short-chain dehydrogenase | / | 0.451 | |
| 4j7x | NAP | Sepiapterin reductase | 1.1.1.153 | 0.451 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.450 | |
| 3l63 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.450 | |
| 2ztm | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.449 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.449 | |
| 1dhf | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 1hb1 | OCV | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 2ztv | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.448 | |
| 3fwf | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.448 | |
| 3zoi | M2W | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 4dbz | NDP | Putative ketoacyl reductase | 1.3.1 | 0.448 | |
| 4g9k | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.448 | |
| 4j7u | NAP | Sepiapterin reductase | 1.1.1.153 | 0.448 | |
| 1phg | MYT | Camphor 5-monooxygenase | 1.14.15.1 | 0.447 | |
| 1pqc | 444 | Oxysterols receptor LXR-beta | / | 0.447 | |
| 2y3s | TIR | TamL | / | 0.447 | |
| 2zax | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.447 | |
| 3oqk | S52 | Renin | 3.4.23.15 | 0.447 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.447 | |
| 2ev9 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.446 | |
| 2hsd | NAD | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.446 | |
| 4enh | FVX | Cholesterol 24-hydroxylase | / | 0.446 | |
| 4euf | NAD | Trans-2-enoyl-CoA reductase [NADH] | / | 0.446 | |
| 4fj2 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.446 | |
| 4l4a | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.446 | |
| 1nyt | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.445 | |
| 2qbm | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.445 | |
| 2w2l | NAD | D-mandelate dehydrogenase | / | 0.445 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 4ek1 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.445 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.445 | |
| 4ipw | 1G7 | Mycocyclosin synthase | 1.14.21.9 | 0.445 | |
| 4nm9 | FAD | Bifunctional protein PutA | / | 0.445 | |
| 4q72 | FAD | Bifunctional protein PutA | / | 0.445 | |
| 4r20 | AER | Cytochrome P450 family 17 polypeptide 2 | / | 0.445 | |
| 1zmd | NAI | Dihydrolipoyl dehydrogenase, mitochondrial | 1.8.1.4 | 0.444 | |
| 2rqf | JH3 | Hemolymph juvenile hormone binding protein | / | 0.444 | |
| 3qrw | NDP | Putative ketoacyl reductase | 1.3.1 | 0.444 | |
| 4b2g | V1N | Uncharacterized protein | / | 0.444 | |
| 4h6p | FMN | Chromate reductase | / | 0.444 | |
| 4nbw | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.444 | |
| 4nmd | FDA | Bifunctional protein PutA | / | 0.444 | |
| 5jla | NAD | Putative short-chain dehydrogenase/reductase | / | 0.444 | |
| 2iko | 7IG | Renin | 3.4.23.15 | 0.443 | |
| 2qbo | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.443 | |
| 3g5h | YTT | Mycocyclosin synthase | 1.14.21.9 | 0.443 | |
| 4g74 | FAD | Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial | 1.6.5.9 | 0.443 | |
| 4ktk | KTK | Cytochrome P450 | / | 0.443 | |
| 1hb3 | SCV | Isopenicillin N synthase | 1.21.3.1 | 0.442 | |
| 1hdg | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.442 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.442 | |
| 1o76 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.442 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.442 | |
| 2bxq | IMN | Serum albumin | / | 0.442 | |
| 3ndr | NAD | Pyridoxal 4-dehydrogenase | 1.1.1.107 | 0.442 | |
| 3nr4 | PYV | Abscisic acid receptor PYL2 | / | 0.442 | |
| 3u8h | BHP | Phospholipase A2, membrane associated | / | 0.442 | |
| 4bge | PYW | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.442 | |
| 1bvr | THT | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.441 | |
| 1ddr | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 1ie9 | VDX | Vitamin D3 receptor | / | 0.441 | |
| 1m13 | HYF | Nuclear receptor subfamily 1 group I member 2 | / | 0.441 | |
| 1nzf | UPG | DNA beta-glucosyltransferase | / | 0.441 | |
| 2e9d | B76 | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) | 2.5.1.31 | 0.441 | |
| 4g3j | VNT | Lanosterol 14-alpha-demethylase | / | 0.441 | |
| 4hwk | NAP | Sepiapterin reductase | 1.1.1.153 | 0.441 | |
| 1iid | NHM | Glycylpeptide N-tetradecanoyltransferase | 2.3.1.97 | 0.440 | |
| 1rf9 | DBR | Camphor 5-monooxygenase | 1.14.15.1 | 0.440 | |
| 2ag5 | NAD | 3-hydroxybutyrate dehydrogenase type 2 | / | 0.440 | |
| 3atz | FMN | Prostaglandin F2a synthase | / | 0.440 | |
| 3oqf | S51 | Renin | 3.4.23.15 | 0.440 | |
| 3vt6 | 5YI | Vitamin D3 receptor | / | 0.440 | |
| 4ewn | 0VR | Imidazole glycerol phosphate synthase subunit HisF | 4.1.3 | 0.440 | |
| 4gdy | 0X1 | Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial | 2.6.1.39 | 0.440 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.440 |