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 |
|---|---|---|---|
| 4kp5 | E1F | Carbonic anhydrase 12 | 4.2.1.1 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4kp5 | E1F | Carbonic anhydrase 12 | 4.2.1.1 | 1.000 | |
| 4kp8 | E1G | Carbonic anhydrase 12 | 4.2.1.1 | 0.572 | |
| 1jd0 | AZM | Carbonic anhydrase 12 | 4.2.1.1 | 0.561 | |
| 4ht2 | V50 | Carbonic anhydrase 12 | 4.2.1.1 | 0.557 | |
| 1i9q | IOF | Carbonic anhydrase 2 | 4.2.1.1 | 0.531 | |
| 3f7b | AG5 | Carbonic anhydrase 4 | 4.2.1.1 | 0.527 | |
| 1g4j | FFB | Carbonic anhydrase 2 | 4.2.1.1 | 0.523 | |
| 4m2v | BZ1 | Carbonic anhydrase 2 | 4.2.1.1 | 0.518 | |
| 1g45 | FSB | Carbonic anhydrase 2 | 4.2.1.1 | 0.515 | |
| 1i9n | IOA | Carbonic anhydrase 2 | 4.2.1.1 | 0.514 | |
| 4xiw | AZM | Carbonic anhydrase, alpha type | / | 0.513 | |
| 1i90 | INM | Carbonic anhydrase 2 | 4.2.1.1 | 0.508 | |
| 4k13 | ETS | Carbonic anhydrase 2 | 4.2.1.1 | 0.504 | |
| 1g4o | BSB | Carbonic anhydrase 2 | 4.2.1.1 | 0.503 | |
| 2h15 | B19 | Carbonic anhydrase 2 | 4.2.1.1 | 0.501 | |
| 3sbh | E65 | Carbonic anhydrase 2 | 4.2.1.1 | 0.500 | |
| 3po6 | DT9 | Carbonic anhydrase 2 | 4.2.1.1 | 0.499 | |
| 1i91 | INQ | Carbonic anhydrase 2 | 4.2.1.1 | 0.498 | |
| 1if4 | FBS | Carbonic anhydrase 2 | 4.2.1.1 | 0.498 | |
| 3k2f | NKX | Carbonic anhydrase 2 | 4.2.1.1 | 0.498 | |
| 3dcs | MZM | Carbonic anhydrase 2 | 4.2.1.1 | 0.497 | |
| 3hku | TOR | Carbonic anhydrase 2 | 4.2.1.1 | 0.492 | |
| 2g1n | 1IG | Renin | 3.4.23.15 | 0.491 | |
| 3m2y | BE0 | Carbonic anhydrase 2 | 4.2.1.1 | 0.491 | |
| 4kni | E1E | Carbonic anhydrase 2 | 4.2.1.1 | 0.491 | |
| 3ffp | LC1 | Carbonic anhydrase 2 | 4.2.1.1 | 0.489 | |
| 3fw3 | ETS | Carbonic anhydrase 4 | 4.2.1.1 | 0.488 | |
| 1g52 | F2B | Carbonic anhydrase 2 | 4.2.1.1 | 0.485 | |
| 1bn1 | AL5 | Carbonic anhydrase 2 | 4.2.1.1 | 0.484 | |
| 4k0t | D9Z | Carbonic anhydrase 2 | 4.2.1.1 | 0.484 | |
| 1cil | ETS | Carbonic anhydrase 2 | 4.2.1.1 | 0.483 | |
| 1if6 | FBU | Carbonic anhydrase 2 | 4.2.1.1 | 0.481 | |
| 3f4x | KLT | Carbonic anhydrase 2 | 4.2.1.1 | 0.481 | |
| 1bnm | AL8 | Carbonic anhydrase 2 | 4.2.1.1 | 0.480 | |
| 1a42 | BZU | Carbonic anhydrase 2 | 4.2.1.1 | 0.479 | |
| 1i8z | INL | Carbonic anhydrase 2 | 4.2.1.1 | 0.476 | |
| 4lu3 | AZM | Carbonic anhydrase 14 | 4.2.1.1 | 0.476 | |
| 1g54 | FFB | Carbonic anhydrase 2 | 4.2.1.1 | 0.475 | |
| 1siq | FAD | Glutaryl-CoA dehydrogenase, mitochondrial | 1.3.8.6 | 0.475 | |
| 3f7u | AG4 | Carbonic anhydrase 4 | 4.2.1.1 | 0.475 | |
| 1bn3 | AL6 | Carbonic anhydrase 2 | 4.2.1.1 | 0.474 | |
| 3eft | 3BS | Carbonic anhydrase 2 | 4.2.1.1 | 0.474 | |
| 3qt6 | 2P0 | Mevalonate diphosphate decarboxylase | / | 0.474 | |
| 1bnn | AL1 | Carbonic anhydrase 2 | 4.2.1.1 | 0.473 | |
| 3b4f | TUO | Carbonic anhydrase 2 | 4.2.1.1 | 0.473 | |
| 3qyk | IE2 | Carbonic anhydrase 2 | 4.2.1.1 | 0.473 | |
| 1bn4 | AL9 | Carbonic anhydrase 2 | 4.2.1.1 | 0.472 | |
| 1fml | RTL | Retinol dehydratase | / | 0.471 | |
| 1ttm | 667 | Carbonic anhydrase 2 | 4.2.1.1 | 0.470 | |
| 4f9f | GDP | Putative glycosyltransferase | / | 0.470 | |
| 1i9p | IOE | Carbonic anhydrase 2 | 4.2.1.1 | 0.469 | |
| 1kwq | SG1 | Carbonic anhydrase 2 | 4.2.1.1 | 0.469 | |
| 2weh | FB1 | Carbonic anhydrase 2 | 4.2.1.1 | 0.469 | |
| 3m98 | E02 | Carbonic anhydrase 2 | 4.2.1.1 | 0.469 | |
| 3sbi | E90 | Carbonic anhydrase 2 | 4.2.1.1 | 0.469 | |
| 4pxx | CHD | Carbonic anhydrase 2 | 4.2.1.1 | 0.469 | |
| 2eu3 | FF3 | Carbonic anhydrase 2 | 4.2.1.1 | 0.468 | |
| 3dd0 | EZL | Carbonic anhydrase 2 | 4.2.1.1 | 0.468 | |
| 4g3j | VNT | Lanosterol 14-alpha-demethylase | / | 0.468 | |
| 3nb5 | R21 | Carbonic anhydrase 2 | 4.2.1.1 | 0.467 | |
| 4m2r | BZ1 | Carbonic anhydrase 2 | 4.2.1.1 | 0.467 | |
| 1g1d | FSB | Carbonic anhydrase 2 | 4.2.1.1 | 0.466 | |
| 4itp | 1GD | Carbonic anhydrase 2 | 4.2.1.1 | 0.466 | |
| 3dc3 | AZM | Carbonic anhydrase 2 | 4.2.1.1 | 0.465 | |
| 3t82 | SG4 | Carbonic anhydrase 2 | 4.2.1.1 | 0.465 | |
| 2x0i | NAI | Malate dehydrogenase | / | 0.464 | |
| 3s9t | E49 | Carbonic anhydrase 2 | 4.2.1.1 | 0.464 | |
| 1ay0 | TPP | Transketolase 1 | 2.2.1.1 | 0.463 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.463 | |
| 1h50 | FMN | Pentaerythritol tetranitrate reductase | / | 0.462 | |
| 1kwr | SG2 | Carbonic anhydrase 2 | 4.2.1.1 | 0.462 | |
| 2xy9 | 3ES | Angiotensin-converting enzyme | 3.2.1 | 0.462 | |
| 3d9z | D9Z | Carbonic anhydrase 2 | 4.2.1.1 | 0.462 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.462 | |
| 3m67 | E36 | Carbonic anhydrase 2 | 4.2.1.1 | 0.462 | |
| 2o7o | DXT | Tetracycline repressor protein class D | / | 0.461 | |
| 4k0z | MZM | Carbonic anhydrase 2 | 4.2.1.1 | 0.461 | |
| 1a9y | UPG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.460 | |
| 1if8 | SBS | Carbonic anhydrase 2 | 4.2.1.1 | 0.460 | |
| 3em0 | CHD | Fatty acid-binding protein 6, ileal (gastrotropin) | / | 0.460 | |
| 3h86 | AP5 | Adenylate kinase | / | 0.460 | |
| 3m2n | J74 | Carbonic anhydrase 2 | 4.2.1.1 | 0.460 | |
| 3tjz | GNP | ADP-ribosylation factor 1 | / | 0.460 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.459 | |
| 1if5 | FBT | Carbonic anhydrase 2 | 4.2.1.1 | 0.459 | |
| 3znc | BZ1 | Carbonic anhydrase 4 | 4.2.1.1 | 0.459 | |
| 4uov | AZM | Carbonate dehydratase | / | 0.459 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.458 | |
| 2ok7 | FAD | Ferredoxin--NADP reductase, apicoplast | / | 0.458 | |
| 2x7u | WZA | Carbonic anhydrase 2 | 4.2.1.1 | 0.458 | |
| 3mdz | EZL | Carbonic anhydrase 7 | 4.2.1.1 | 0.458 | |
| 1bnt | AL2 | Carbonic anhydrase 2 | 4.2.1.1 | 0.457 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.457 | |
| 2x7t | WZB | Carbonic anhydrase 2 | 4.2.1.1 | 0.457 | |
| 3mzc | S6I | Carbonic anhydrase 2 | 4.2.1.1 | 0.457 | |
| 3n0n | P9B | Carbonic anhydrase 2 | 4.2.1.1 | 0.457 | |
| 1xq0 | 4TR | Carbonic anhydrase 2 | 4.2.1.1 | 0.456 | |
| 2wd2 | MS5 | Carbonic anhydrase 2 | 4.2.1.1 | 0.456 | |
| 3bet | CTF | Carbonic anhydrase 2 | 4.2.1.1 | 0.456 | |
| 3m5e | JDR | Carbonic anhydrase 2 | 4.2.1.1 | 0.456 | |
| 4kap | 1QV | Carbonic anhydrase 2 | 4.2.1.1 | 0.456 | |
| 3mpj | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.455 | |
| 3oys | OYS | Carbonic anhydrase 2 | 4.2.1.1 | 0.455 | |
| 1bnw | TPD | Carbonic anhydrase 2 | 4.2.1.1 | 0.454 | |
| 1gpd | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.454 | |
| 2iku | LIY | Renin | 3.4.23.15 | 0.454 | |
| 2ktd | PUC | Prostaglandin-H2 D-isomerase | 5.3.99.2 | 0.454 | |
| 2weo | FBW | Carbonic anhydrase 2 | 4.2.1.1 | 0.454 | |
| 3etg | NDP | Glutamate dehydrogenase 1, mitochondrial | 1.4.1.3 | 0.454 | |
| 3gwf | NAP | Cyclohexanone monooxygenase | / | 0.454 | |
| 3s1d | ZIR | Cytokinin dehydrogenase 1 | 1.5.99.12 | 0.454 | |
| 1x8l | OXR | Retinol dehydratase | / | 0.453 | |
| 3mho | J43 | Carbonic anhydrase 2 | 4.2.1.1 | 0.453 | |
| 4p63 | NAD | Probable deoxyhypusine synthase | 2.5.1.46 | 0.453 | |
| 3dd8 | 2C7 | Carbonic anhydrase 2 | 4.2.1.1 | 0.452 | |
| 3fr5 | I4A | Fatty acid-binding protein, adipocyte | / | 0.452 | |
| 3il1 | B5D | Glutamate receptor 2 | / | 0.452 | |
| 3nmp | PYV | Abscisic acid receptor PYL2 | / | 0.452 | |
| 3sax | E50 | Carbonic anhydrase 2 | 4.2.1.1 | 0.451 | |
| 3t84 | SG6 | Carbonic anhydrase 2 | 4.2.1.1 | 0.451 | |
| 2nni | MTK | Cytochrome P450 2C8 | / | 0.450 | |
| 2vtb | FAD | Cryptochrome DASH, chloroplastic/mitochondrial | / | 0.450 | |
| 3daz | MZM | Carbonic anhydrase 2 | 4.2.1.1 | 0.450 | |
| 3mhl | J71 | Carbonic anhydrase 2 | 4.2.1.1 | 0.450 | |
| 4x5s | AZM | Carbonic anhydrase (Carbonate dehydratase) | / | 0.450 | |
| 5a3c | NAD | SIR2 family protein | / | 0.450 | |
| 1bws | NDP | GDP-L-fucose synthase | / | 0.449 | |
| 1h51 | FMN | Pentaerythritol tetranitrate reductase | / | 0.449 | |
| 3oqf | S51 | Renin | 3.4.23.15 | 0.449 | |
| 4m83 | ERY | Oleandomycin glycosyltransferase | 2.4.1 | 0.449 | |
| 5flt | VJJ | Carbonic anhydrase 2 | 4.2.1.1 | 0.449 | |
| 2oap | ANP | Type II secretion system protein (GspE-2) | / | 0.448 | |
| 2y4g | TIR | TamL | / | 0.448 | |
| 3tr0 | 5GP | Guanylate kinase | / | 0.448 | |
| 4knj | E1F | Carbonic anhydrase 2 | 4.2.1.1 | 0.448 | |
| 4uwm | FMN | 3,6-diketocamphane 1,6 monooxygenase | 1.14.13 | 0.448 | |
| 1bnq | AL4 | Carbonic anhydrase 2 | 4.2.1.1 | 0.447 | |
| 1xpz | 4TZ | Carbonic anhydrase 2 | 4.2.1.1 | 0.447 | |
| 3m96 | E38 | Carbonic anhydrase 2 | 4.2.1.1 | 0.447 | |
| 4ito | MPX | Carbonic anhydrase 2 | 4.2.1.1 | 0.447 | |
| 4yao | FMN | NADPH--cytochrome P450 reductase | / | 0.447 | |
| 1kvs | UPG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.446 | |
| 1n75 | ATP | Glutamate--tRNA ligase | 6.1.1.17 | 0.446 | |
| 1np7 | FAD | Cryptochrome DASH | / | 0.446 | |
| 1okn | STB | Carbonic anhydrase 2 | 4.2.1.1 | 0.446 | |
| 1vyr | FMN | Pentaerythritol tetranitrate reductase | / | 0.446 | |
| 2y3s | TIR | TamL | / | 0.446 | |
| 3gdp | FAD | (R)-mandelonitrile lyase 2 | 4.1.2.10 | 0.446 | |
| 3ni5 | C1H | Carbonic anhydrase 2 | 4.2.1.1 | 0.446 | |
| 3p62 | FMN | Pentaerythritol tetranitrate reductase | / | 0.446 | |
| 4hbm | 0Y7 | E3 ubiquitin-protein ligase Mdm2 | 6.3.2 | 0.446 | |
| 4ilx | 1EZ | Carbonic anhydrase 2 | 4.2.1.1 | 0.446 | |
| 2w2l | NAD | D-mandelate dehydrogenase | / | 0.445 | |
| 4b3a | TAC | Tetracycline repressor protein class D | / | 0.445 | |
| 1bnv | AL7 | Carbonic anhydrase 2 | 4.2.1.1 | 0.444 | |
| 1jtv | TES | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.444 | |
| 1zsb | AZM | Carbonic anhydrase 2 | 4.2.1.1 | 0.444 | |
| 2abb | FMN | Pentaerythritol tetranitrate reductase | / | 0.444 | |
| 2hma | SAM | tRNA-specific 2-thiouridylase MnmA | / | 0.444 | |
| 2iyf | ERY | Oleandomycin glycosyltransferase | 2.4.1 | 0.444 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.444 | |
| 4gdy | 0X1 | Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial | 2.6.1.39 | 0.444 | |
| 4i5v | B4P | Diadenosine 5',5'''-P1,P4-tetraphosphate phosphorylase 2 | / | 0.444 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.443 | |
| 1ork | ATC | Tetracycline repressor protein class D | / | 0.443 | |
| 1tqf | 32P | Beta-secretase 1 | 3.4.23.46 | 0.443 | |
| 1xe5 | 5FE | Plasmepsin-2 | 3.4.23.39 | 0.443 | |
| 2x86 | ADP | ADP-L-glycero-D-manno-heptose-6-epimerase | / | 0.443 | |
| 1eio | GCH | Gastrotropin | / | 0.442 | |
| 1eq2 | ADQ | ADP-L-glycero-D-manno-heptose-6-epimerase | / | 0.442 | |
| 1g1a | NAD | dTDP-glucose 4,6-dehydratase | / | 0.442 | |
| 1nvt | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.442 | |
| 1okl | MNS | Carbonic anhydrase 2 | 4.2.1.1 | 0.442 | |
| 3p74 | FMN | Pentaerythritol tetranitrate reductase | / | 0.442 | |
| 3zei | AWH | O-acetylserine sulfhydrylase | / | 0.442 | |
| 4f1l | 0RY | Poly [ADP-ribose] polymerase 14 | 2.4.2.30 | 0.442 | |
| 4itm | ATP | Tetraacyldisaccharide 4'-kinase | / | 0.442 | |
| 4v2g | ITC | Tetracycline repressor protein class D | / | 0.442 | |
| 5hs1 | VOR | Lanosterol 14-alpha demethylase | / | 0.442 | |
| 1nzd | UPG | DNA beta-glucosyltransferase | / | 0.441 | |
| 2a92 | NAI | L-lactate dehydrogenase | / | 0.441 | |
| 3f03 | FMN | Pentaerythritol tetranitrate reductase | / | 0.441 | |
| 3oet | NAD | Erythronate-4-phosphate dehydrogenase | / | 0.441 | |
| 3uyl | TYD | Probable NDP-rhamnosyltransferase | / | 0.441 | |
| 4g7g | VFV | Lanosterol 14-alpha-demethylase | / | 0.441 | |
| 4n16 | CHD | Carbonic anhydrase 2 | 4.2.1.1 | 0.441 | |
| 5dw6 | 0T1 | Succinyl-CoA:acetate CoA-transferase | / | 0.441 | |
| 1h63 | FMN | Pentaerythritol tetranitrate reductase | / | 0.440 | |
| 1oq5 | CEL | Carbonic anhydrase 2 | 4.2.1.1 | 0.440 | |
| 1zrz | BI1 | Protein kinase C iota type | 2.7.11.13 | 0.440 | |
| 1zth | ADP | RIO-type serine/threonine-protein kinase Rio1 | 2.7.11.1 | 0.440 | |
| 3qfr | FMN | NADPH--cytochrome P450 reductase | / | 0.440 | |
| 3t3r | 9PL | Cytochrome P450 2A6 | 1.14.13 | 0.440 | |
| 4a83 | DXC | Major pollen allergen Bet v 1-A | / | 0.440 | |
| 4qxq | 1YE | Stimulator of interferon genes protein | / | 0.440 |