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 |
|---|---|---|---|
| 4hu1 | V13 | Carbonic anhydrase 13 | 4.2.1.1 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4hu1 | V13 | Carbonic anhydrase 13 | 4.2.1.1 | 1.000 | |
| 4knn | E1F | Carbonic anhydrase 13 | 4.2.1.1 | 0.587 | |
| 3da2 | 4MD | Carbonic anhydrase 13 | 4.2.1.1 | 0.568 | |
| 4knm | E1E | Carbonic anhydrase 13 | 4.2.1.1 | 0.549 | |
| 1bn1 | AL5 | Carbonic anhydrase 2 | 4.2.1.1 | 0.546 | |
| 2x7u | WZA | Carbonic anhydrase 2 | 4.2.1.1 | 0.540 | |
| 2x7t | WZB | Carbonic anhydrase 2 | 4.2.1.1 | 0.532 | |
| 3qyk | IE2 | Carbonic anhydrase 2 | 4.2.1.1 | 0.530 | |
| 1i8z | INL | Carbonic anhydrase 2 | 4.2.1.1 | 0.528 | |
| 1bnn | AL1 | Carbonic anhydrase 2 | 4.2.1.1 | 0.527 | |
| 1g54 | FFB | Carbonic anhydrase 2 | 4.2.1.1 | 0.526 | |
| 4ilx | 1EZ | Carbonic anhydrase 2 | 4.2.1.1 | 0.525 | |
| 1ttm | 667 | Carbonic anhydrase 2 | 4.2.1.1 | 0.523 | |
| 3d9z | D9Z | Carbonic anhydrase 2 | 4.2.1.1 | 0.521 | |
| 3dc3 | AZM | Carbonic anhydrase 2 | 4.2.1.1 | 0.521 | |
| 4pxx | CHD | Carbonic anhydrase 2 | 4.2.1.1 | 0.518 | |
| 1zsb | AZM | Carbonic anhydrase 2 | 4.2.1.1 | 0.517 | |
| 4kap | 1QV | Carbonic anhydrase 2 | 4.2.1.1 | 0.515 | |
| 3mdz | EZL | Carbonic anhydrase 7 | 4.2.1.1 | 0.514 | |
| 1i91 | INQ | Carbonic anhydrase 2 | 4.2.1.1 | 0.513 | |
| 3daz | MZM | Carbonic anhydrase 2 | 4.2.1.1 | 0.513 | |
| 3nb5 | R21 | Carbonic anhydrase 2 | 4.2.1.1 | 0.513 | |
| 1a42 | BZU | Carbonic anhydrase 2 | 4.2.1.1 | 0.512 | |
| 3t82 | SG4 | Carbonic anhydrase 2 | 4.2.1.1 | 0.511 | |
| 3igp | DT7 | Carbonic anhydrase 2 | 4.2.1.1 | 0.510 | |
| 2h15 | B19 | Carbonic anhydrase 2 | 4.2.1.1 | 0.509 | |
| 3sbh | E65 | Carbonic anhydrase 2 | 4.2.1.1 | 0.509 | |
| 3dcs | MZM | Carbonic anhydrase 2 | 4.2.1.1 | 0.508 | |
| 1i90 | INM | Carbonic anhydrase 2 | 4.2.1.1 | 0.507 | |
| 2weh | FB1 | Carbonic anhydrase 2 | 4.2.1.1 | 0.506 | |
| 1if6 | FBU | Carbonic anhydrase 2 | 4.2.1.1 | 0.501 | |
| 1if7 | SBR | Carbonic anhydrase 2 | 4.2.1.1 | 0.500 | |
| 5flt | VJJ | Carbonic anhydrase 2 | 4.2.1.1 | 0.500 | |
| 1kwr | SG2 | Carbonic anhydrase 2 | 4.2.1.1 | 0.499 | |
| 2pow | I7C | Carbonic anhydrase 2 | 4.2.1.1 | 0.499 | |
| 1if4 | FBS | Carbonic anhydrase 2 | 4.2.1.1 | 0.496 | |
| 3n4b | WWZ | Carbonic anhydrase 2 | 4.2.1.1 | 0.496 | |
| 1bn4 | AL9 | Carbonic anhydrase 2 | 4.2.1.1 | 0.494 | |
| 3mna | DWH | Carbonic anhydrase 2 | 4.2.1.1 | 0.492 | |
| 4itp | 1GD | Carbonic anhydrase 2 | 4.2.1.1 | 0.491 | |
| 3kig | DA4 | Carbonic anhydrase 2 | 4.2.1.1 | 0.490 | |
| 3po6 | DT9 | Carbonic anhydrase 2 | 4.2.1.1 | 0.490 | |
| 1cny | EG3 | Carbonic anhydrase 2 | 4.2.1.1 | 0.487 | |
| 3dd8 | 2C7 | Carbonic anhydrase 2 | 4.2.1.1 | 0.487 | |
| 3sbi | E90 | Carbonic anhydrase 2 | 4.2.1.1 | 0.487 | |
| 1oq5 | CEL | Carbonic anhydrase 2 | 4.2.1.1 | 0.484 | |
| 1bn3 | AL6 | Carbonic anhydrase 2 | 4.2.1.1 | 0.483 | |
| 1if5 | FBT | Carbonic anhydrase 2 | 4.2.1.1 | 0.483 | |
| 3ffp | LC1 | Carbonic anhydrase 2 | 4.2.1.1 | 0.482 | |
| 3t84 | SG6 | Carbonic anhydrase 2 | 4.2.1.1 | 0.482 | |
| 1ay0 | TPP | Transketolase 1 | 2.2.1.1 | 0.481 | |
| 3dd0 | EZL | Carbonic anhydrase 2 | 4.2.1.1 | 0.481 | |
| 3eft | 3BS | Carbonic anhydrase 2 | 4.2.1.1 | 0.480 | |
| 4l0q | NAD | Alcohol dehydrogenase class-3 | / | 0.479 | |
| 2weo | FBW | Carbonic anhydrase 2 | 4.2.1.1 | 0.478 | |
| 3s8x | E59 | Carbonic anhydrase 2 | 4.2.1.1 | 0.476 | |
| 3n0n | P9B | Carbonic anhydrase 2 | 4.2.1.1 | 0.475 | |
| 2wej | FB2 | Carbonic anhydrase 2 | 4.2.1.1 | 0.473 | |
| 3mho | J43 | Carbonic anhydrase 2 | 4.2.1.1 | 0.472 | |
| 4gl4 | NAI | Alcohol dehydrogenase class-3 | / | 0.472 | |
| 4iwz | 1GO | Carbonic anhydrase 2 | 4.2.1.1 | 0.472 | |
| 2eu3 | FF3 | Carbonic anhydrase 2 | 4.2.1.1 | 0.471 | |
| 2w9h | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.471 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.470 | |
| 3hku | TOR | Carbonic anhydrase 2 | 4.2.1.1 | 0.470 | |
| 4bf1 | 9FK | Carbonic anhydrase 2 | 4.2.1.1 | 0.468 | |
| 2jbs | FMN | p-hydroxyphenylacetate 3-hydroxylase, oxygenase component | / | 0.467 | |
| 2jfh | LK1 | UDP-N-acetylmuramoylalanine--D-glutamate ligase | 6.3.2.9 | 0.467 | |
| 3k2f | NKX | Carbonic anhydrase 2 | 4.2.1.1 | 0.467 | |
| 3oik | WZB | Carbonic anhydrase 2 | 4.2.1.1 | 0.467 | |
| 3oy0 | OY0 | Carbonic anhydrase 2 | 4.2.1.1 | 0.467 | |
| 1g4j | FFB | Carbonic anhydrase 2 | 4.2.1.1 | 0.466 | |
| 3oyq | OYQ | Carbonic anhydrase 2 | 4.2.1.1 | 0.466 | |
| 4j8t | DOG | Uncharacterized PhzA/B-like protein PA3332 | / | 0.465 | |
| 1uyh | PU0 | Heat shock protein HSP 90-alpha | / | 0.463 | |
| 3p5l | IT5 | Carbonic anhydrase 2 | 4.2.1.1 | 0.463 | |
| 1bnw | TPD | Carbonic anhydrase 2 | 4.2.1.1 | 0.462 | |
| 1fmj | RTL | Retinol dehydratase | / | 0.462 | |
| 2wd2 | MS5 | Carbonic anhydrase 2 | 4.2.1.1 | 0.462 | |
| 3lxe | TOR | Carbonic anhydrase 1 | 4.2.1.1 | 0.462 | |
| 3b4f | TUO | Carbonic anhydrase 2 | 4.2.1.1 | 0.461 | |
| 4kby | C2E | Stimulator of interferon genes protein | / | 0.461 | |
| 1cnx | EG2 | Carbonic anhydrase 2 | 4.2.1.1 | 0.460 | |
| 1teh | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.460 | |
| 4a81 | DXC | Major pollen allergen Bet v 1-A | / | 0.460 | |
| 4iar | ERM | 5-hydroxytryptamine receptor 1B | / | 0.459 | |
| 4mo8 | 2VQ | Carbonic anhydrase 2 | 4.2.1.1 | 0.459 | |
| 3mhc | ARZ | Carbonic anhydrase 2 | 4.2.1.1 | 0.458 | |
| 1ia3 | TQ5 | Dihydrofolate reductase | 1.5.1.3 | 0.457 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.457 | |
| 4knj | E1F | Carbonic anhydrase 2 | 4.2.1.1 | 0.457 | |
| 1bnm | AL8 | Carbonic anhydrase 2 | 4.2.1.1 | 0.456 | |
| 1fdu | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.456 | |
| 1i9n | IOA | Carbonic anhydrase 2 | 4.2.1.1 | 0.455 | |
| 1bnv | AL7 | Carbonic anhydrase 2 | 4.2.1.1 | 0.454 | |
| 2pam | TYD | TDP-4-oxo-6-deoxy-alpha-D-glucose-3,4-oxoisomerase | 5.3.2.3 | 0.454 | |
| 3dcw | EZL | Carbonic anhydrase 2 | 4.2.1.1 | 0.454 | |
| 3tk3 | CPZ | Cytochrome P450 2B4 | 1.14.14.1 | 0.454 | |
| 4dl9 | NAD | S-(hydroxymethyl)glutathione dehydrogenase | / | 0.454 | |
| 4iae | 1DX | Alr2278 protein | / | 0.454 | |
| 4kni | E1E | Carbonic anhydrase 2 | 4.2.1.1 | 0.454 | |
| 1i9q | IOF | Carbonic anhydrase 2 | 4.2.1.1 | 0.453 | |
| 1kqw | RTL | Cellular retinol-binding protein type II | / | 0.453 | |
| 1mp0 | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.453 | |
| 2j9l | ATP | H(+)/Cl(-) exchange transporter 5 | / | 0.453 | |
| 3t85 | SG7 | Carbonic anhydrase 2 | 4.2.1.1 | 0.453 | |
| 1cjt | FOK | Adenylate cyclase type 2 | / | 0.452 | |
| 1cjt | FOK | Adenylate cyclase type 5 | / | 0.452 | |
| 2dvl | FAD | Acyl-CoA dehydrogenase | / | 0.452 | |
| 4bfw | ZVW | Pantothenate kinase | 2.7.1.33 | 0.452 | |
| 1fm7 | DFV | Chalcone--flavonone isomerase 1 | 5.5.1.6 | 0.451 | |
| 1g52 | F2B | Carbonic anhydrase 2 | 4.2.1.1 | 0.451 | |
| 3dyn | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.451 | |
| 4bf6 | X0Q | Carbonic anhydrase 2 | 4.2.1.1 | 0.451 | |
| 1hb1 | OCV | Isopenicillin N synthase | 1.21.3.1 | 0.450 | |
| 4h6p | FMN | Chromate reductase | / | 0.450 | |
| 1diu | BDM | Dihydrofolate reductase | 1.5.1.3 | 0.449 | |
| 3c14 | FOK | Adenylate cyclase type 2 | / | 0.449 | |
| 3c14 | FOK | Adenylate cyclase type 5 | / | 0.449 | |
| 3hdh | NAD | Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial | 1.1.1.35 | 0.449 | |
| 4fhk | 0U0 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.449 | |
| 4qzu | RTL | Retinol-binding protein 2 | / | 0.449 | |
| 4xz3 | COA | Acyl-CoA synthetase (NDP forming) | / | 0.449 | |
| 1b2l | NDC | Alcohol dehydrogenase | 1.1.1.1 | 0.448 | |
| 1fm4 | DXC | Major pollen allergen Bet v 1-L | / | 0.448 | |
| 1okl | MNS | Carbonic anhydrase 2 | 4.2.1.1 | 0.448 | |
| 3irm | 1CY | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.448 | |
| 4a83 | DXC | Major pollen allergen Bet v 1-A | / | 0.448 | |
| 4j53 | 1J4 | Serine/threonine-protein kinase PLK1 | 2.7.11.21 | 0.448 | |
| 1fml | RTL | Retinol dehydratase | / | 0.447 | |
| 2qim | ZEA | Class 10 plant pathogenesis-related protein | / | 0.447 | |
| 2vte | IK4 | UDP-N-acetylmuramoylalanine--D-glutamate ligase | 6.3.2.9 | 0.447 | |
| 3dcc | D9Z | Carbonic anhydrase 2 | 4.2.1.1 | 0.447 | |
| 4n16 | CHD | Carbonic anhydrase 2 | 4.2.1.1 | 0.447 | |
| 1cnw | EG1 | Carbonic anhydrase 2 | 4.2.1.1 | 0.446 | |
| 1rj6 | AZM | Carbonic anhydrase 14 | 4.2.1.1 | 0.445 | |
| 2qbo | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.445 | |
| 3oaf | OAG | Dihydrofolate reductase | 1.5.1.3 | 0.445 | |
| 3zoi | M2W | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 4lxj | LAN | Lanosterol 14-alpha demethylase | 1.14.13.70 | 0.445 | |
| 1gpe | FAD | Glucose oxidase | 1.1.3.4 | 0.444 | |
| 1zbd | GTP | Ras-related protein Rab-3A | / | 0.444 | |
| 3nga | 3NG | Casein kinase II subunit alpha | 2.7.11.1 | 0.444 | |
| 4dz7 | D02 | Carbonic anhydrase 2 | 4.2.1.1 | 0.444 | |
| 1ia4 | TQ6 | Dihydrofolate reductase | 1.5.1.3 | 0.443 | |
| 1pkf | EPD | Epothilone C/D epoxidase | 1.14 | 0.443 | |
| 1xoq | ROF | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.443 | |
| 2h4n | AZM | Carbonic anhydrase 2 | 4.2.1.1 | 0.443 | |
| 2q1q | OSP | Carbonic anhydrase 2 | 4.2.1.1 | 0.443 | |
| 4lga | A2O | Abscisic acid receptor PYL2 | / | 0.443 | |
| 4rrf | A3S | Threonine--tRNA ligase | 6.1.1.3 | 0.443 | |
| 4xiw | AZM | Carbonic anhydrase, alpha type | / | 0.443 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.442 | |
| 1r2j | FAD | FkbI | / | 0.442 | |
| 2qg2 | A91 | Heat shock protein HSP 90-alpha | / | 0.442 | |
| 3akn | 11D | Fatty acid-binding protein, intestinal | / | 0.442 | |
| 3dy8 | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.442 | |
| 3ni5 | C1H | Carbonic anhydrase 2 | 4.2.1.1 | 0.442 | |
| 3v2u | ATP | Protein GAL3 | / | 0.442 | |
| 4eft | EFT | Heat shock protein HSP 90-alpha | / | 0.442 | |
| 1cju | FOK | Adenylate cyclase type 2 | / | 0.441 | |
| 1cju | FOK | Adenylate cyclase type 5 | / | 0.441 | |
| 1f4e | TPR | Thymidylate synthase | / | 0.441 | |
| 1m13 | HYF | Nuclear receptor subfamily 1 group I member 2 | / | 0.441 | |
| 2qd4 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.441 | |
| 2vig | FAD | Short-chain specific acyl-CoA dehydrogenase, mitochondrial | 1.3.8.1 | 0.441 | |
| 3gmd | 2M3 | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.441 | |
| 5dp2 | NAP | CurF | / | 0.441 | |
| 3eml | ZMA | Adenosine receptor A2a | / | 0.441 | |
| 1jd0 | AZM | Carbonic anhydrase 12 | 4.2.1.1 | 0.440 | |
| 1tl7 | FOK | Adenylate cyclase type 2 | / | 0.440 | |
| 1tl7 | FOK | Adenylate cyclase type 5 | / | 0.440 | |
| 2dw4 | FAD | Lysine-specific histone demethylase 1A | 1 | 0.440 | |
| 2ipj | FFA | Aldo-keto reductase family 1 member C2 | / | 0.440 | |
| 2w4q | CBW | Prostaglandin reductase 2 | 1.3.1.48 | 0.440 |