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 |
|---|---|---|---|
| 3s55 | NAD | Putative short-chain dehydrogenase/reductase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3s55 | NAD | Putative short-chain dehydrogenase/reductase | / | 1.000 | |
| 1e6w | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.600 | |
| 2wdz | NAD | Galactitol dehydrogenase | / | 0.587 | |
| 5jsf | NAD | 17-beta-hydroxysteroid dehydrogenase 14 | 1.1.1 | 0.578 | |
| 1iy8 | NAD | Levodione reductase | / | 0.577 | |
| 2d1y | NAD | Oxidoreductase, short-chain dehydrogenase/reductase family | / | 0.577 | |
| 1ipe | NDP | Tropinone reductase 2 | 1.1.1.236 | 0.573 | |
| 1edo | NAP | 3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic | 1.1.1.100 | 0.572 | |
| 2wsb | NAD | Galactitol dehydrogenase | / | 0.570 | |
| 4gh5 | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.570 | |
| 5jla | NAD | Putative short-chain dehydrogenase/reductase | / | 0.570 | |
| 3ijr | NAD | Oxidoreductase, short chain dehydrogenase/reductase family | / | 0.568 | |
| 1g0n | NDP | Tetrahydroxynaphthalene reductase | 1.1.1.252 | 0.562 | |
| 3sx2 | NAD | Uncharacterized protein | / | 0.562 | |
| 1nff | NAD | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.561 | |
| 1ae1 | NAP | Tropinone reductase 1 | / | 0.560 | |
| 4is3 | NAD | 3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 | 1.17.98.1 | 0.560 | |
| 5js6 | NAD | 17-beta-hydroxysteroid dehydrogenase 14 | 1.1.1 | 0.558 | |
| 2gdz | NAD | 15-hydroxyprostaglandin dehydrogenase [NAD(+)] | 1.1.1.141 | 0.556 | |
| 1e3w | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.555 | |
| 2dkn | NAI | 3-alpha-hydroxysteroid dehydrogenase | / | 0.555 | |
| 3wds | NAD | NADH-dependent quinuclidinone reductase | / | 0.555 | |
| 1nfr | NAD | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.552 | |
| 3w8e | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.552 | |
| 4fj1 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.552 | |
| 4nbt | NAD | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.550 | |
| 4yai | NAI | C alpha-dehydrogenase | / | 0.549 | |
| 3ak4 | NAD | NADH-dependent quinuclidinone reductase | / | 0.547 | |
| 4yag | NAI | C alpha-dehydrogenase | / | 0.547 | |
| 3ndr | NAD | Pyridoxal 4-dehydrogenase | 1.1.1.107 | 0.546 | |
| 3pgx | NAD | Uncharacterized NAD-dependent oxidoreductase MAP_4146 | / | 0.545 | |
| 3vdq | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.544 | |
| 5idw | NAP | Short-chain dehydrogenase/reductase SDR | / | 0.543 | |
| 1pr9 | NAP | L-xylulose reductase | 1.1.1.10 | 0.542 | |
| 1sny | NAP | LD36273p | / | 0.541 | |
| 4nbu | NAI | 3-oxoacyl-(Acyl-carrier-protein) reductase | / | 0.541 | |
| 4iqg | NAP | Short-chain dehydrogenase/reductase SDR | / | 0.539 | |
| 3qwf | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.538 | |
| 3tox | NAP | Putative oxidoreductase | / | 0.537 | |
| 5lc1 | NAD | L-threonine 3-dehydrogenase | / | 0.537 | |
| 4yr9 | NAD | L-threonine 3-dehydrogenase, mitochondrial | 1.1.1.103 | 0.536 | |
| 3a28 | NAD | L-2,3-butanediol dehydrogenase | 1.1.1.76 | 0.535 | |
| 3tsc | NAD | Uncharacterized protein | / | 0.534 | |
| 5jyd | NAD | Short chain dehydrogenase | / | 0.534 | |
| 4nbw | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.533 | |
| 1x7g | NAP | Putative ketoacyl reductase | 1.3.1 | 0.532 | |
| 4j7u | NAP | Sepiapterin reductase | 1.1.1.153 | 0.532 | |
| 4j7x | NAP | Sepiapterin reductase | 1.1.1.153 | 0.532 | |
| 2q2v | NAD | Beta-D-hydroxybutyrate dehydrogenase | / | 0.531 | |
| 3nug | NAD | Pyridoxal 4-dehydrogenase | 1.1.1.107 | 0.531 | |
| 1n5d | NDP | Carbonyl reductase [NADPH] 1 | / | 0.530 | |
| 1e3s | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.529 | |
| 2yy7 | NAD | L-threonine dehydrogenase | / | 0.528 | |
| 4fw8 | NAI | 3-oxoacyl-(Acyl-carrier-protein) reductase | / | 0.528 | |
| 2dte | NAI | Glucose 1-dehydrogenase related protein | / | 0.523 | |
| 3bhi | NAP | Carbonyl reductase [NADPH] 1 | 1.1.1.184 | 0.523 | |
| 1geg | NAD | Diacetyl reductase [(S)-acetoin forming] | 1.1.1.304 | 0.522 | |
| 4i5e | NAP | Alclohol dehydrogenase/short-chain dehydrogenase | / | 0.522 | |
| 4fj2 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.520 | |
| 3p19 | NDP | Putative blue fluorescent protein | / | 0.519 | |
| 1wnt | NAP | L-xylulose reductase | 1.1.1.10 | 0.517 | |
| 4fn4 | NAD | Short chain dehydrogenase | / | 0.516 | |
| 2jah | NDP | Clavaldehyde dehydrogenase | / | 0.515 | |
| 3rj5 | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.514 | |
| 4bmv | NAP | Short-chain dehydrogenase | / | 0.514 | |
| 4fj0 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.514 | |
| 3d3w | NAP | L-xylulose reductase | 1.1.1.10 | 0.513 | |
| 4dc1 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.513 | |
| 2ztm | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.512 | |
| 1vl8 | NAP | Oxidoreductase, short chain dehydrogenase/reductase family | / | 0.511 | |
| 2zat | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.511 | |
| 2p5u | NAD | UDP-glucose 4-epimerase | / | 0.510 | |
| 2ewm | NAD | (S)-1-Phenylethanol dehydrogenase | 1.1.1.311 | 0.509 | |
| 1cyd | NDP | Carbonyl reductase [NADPH] 2 | 1.1.1.184 | 0.508 | |
| 3rj9 | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.508 | |
| 4hwk | NAP | Sepiapterin reductase | 1.1.1.153 | 0.508 | |
| 1u7t | TDT | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.507 | |
| 3sju | NDP | Keto reductase | / | 0.507 | |
| 4rf2 | NAP | NADPH dependent R-specific alcohol dehydrogenase | / | 0.507 | |
| 4dmm | NAP | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.506 | |
| 4z3d | NDP | Carbonyl reductase [NADPH] 1 | 1.1.1.184 | 0.506 | |
| 3a4v | NAD | NDP-sugar epimerase | / | 0.504 | |
| 3u4c | NDP | NADPH-dependent reductase BacG | / | 0.503 | |
| 1mg5 | NAI | Alcohol dehydrogenase | 1.1.1.1 | 0.501 | |
| 1rwb | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.501 | |
| 5ig2 | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.501 | |
| 2ag5 | NAD | 3-hydroxybutyrate dehydrogenase type 2 | / | 0.500 | |
| 3o4r | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.500 | |
| 2ztl | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.497 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.496 | |
| 3uxy | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.496 | |
| 3w8f | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.495 | |
| 1oaa | NAP | Sepiapterin reductase | 1.1.1.153 | 0.494 | |
| 1b15 | NAE | Alcohol dehydrogenase | 1.1.1.1 | 0.493 | |
| 1kvr | NAD | UDP-glucose 4-epimerase | 5.1.3.2 | 0.493 | |
| 1w4z | NAP | Putative ketoacyl reductase | 1.3.1 | 0.493 | |
| 1xg5 | NAP | Dehydrogenase/reductase SDR family member 11 | / | 0.493 | |
| 1g6k | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.492 | |
| 2q2q | NAD | Beta-D-hydroxybutyrate dehydrogenase | / | 0.492 | |
| 4qec | NAP | ElxO | / | 0.491 | |
| 2ekp | NAD | 2-deoxy-D-gluconate 3-dehydrogenase | / | 0.489 | |
| 3a1n | NAD | NDP-sugar epimerase | / | 0.487 | |
| 1h5q | NAP | NADP-dependent mannitol dehydrogenase | 1.1.1.138 | 0.486 | |
| 4bms | NAP | Alclohol dehydrogenase/short-chain dehydrogenase | / | 0.486 | |
| 1b16 | NAQ | Alcohol dehydrogenase | 1.1.1.1 | 0.485 | |
| 1gco | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.485 | |
| 3qrw | NDP | Putative ketoacyl reductase | 1.3.1 | 0.485 | |
| 4idg | NAD | Putative UDP-glucose 4-epimerase | / | 0.484 | |
| 1x7h | NDP | Putative ketoacyl reductase | 1.3.1 | 0.483 | |
| 1xkq | NDP | Uncharacterized protein | / | 0.482 | |
| 3gy0 | NAP | NAD(P)-dependent oxidoreductase | / | 0.482 | |
| 3l77 | NJP | Short-chain alcohol dehydrogenase | / | 0.481 | |
| 1sby | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.479 | |
| 3ai2 | NDP | NADPH-sorbose reductase | / | 0.479 | |
| 1gee | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.478 | |
| 1xse | NDP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.478 | |
| 2wyv | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.478 | |
| 2yut | NAP | Putative short-chain oxidoreductase | / | 0.478 | |
| 3tn7 | NJP | Short-chain alcohol dehydrogenase | / | 0.478 | |
| 1zem | NAD | Xylitol dehydrogenase | / | 0.477 | |
| 2bd0 | NAP | Sepiapterin reductase | / | 0.477 | |
| 3w8d | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.477 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.477 | |
| 1i2b | NAD | UDP-sulfoquinovose synthase, chloroplastic | 3.13.1.1 | 0.475 | |
| 3rku | NAP | NADP-dependent 3-hydroxy acid dehydrogenase | / | 0.474 | |
| 4b79 | NAD | Probable short-chain dehydrogenase | / | 0.474 | |
| 2q1w | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.473 | |
| 2hrb | NAP | Carbonyl reductase [NADPH] 3 | 1.1.1.184 | 0.472 | |
| 2hsd | NAD | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.472 | |
| 4lis | NAD | UDP-glucose 4-epimerase (Eurofung) | / | 0.472 | |
| 4cr8 | NAD | N-acylmannosamine 1-dehydrogenase | 1.1.1.233 | 0.471 | |
| 3lu1 | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.469 | |
| 3r3s | NAD | Putative oxidoreductase | / | 0.469 | |
| 1b14 | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.468 | |
| 2c54 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.468 | |
| 2ydx | NAP | Methionine adenosyltransferase 2 subunit beta | / | 0.466 | |
| 5jy1 | NAD | Putative short-chain dehydrogenase/reductase | / | 0.465 | |
| 1i3l | NAD | UDP-glucose 4-epimerase | / | 0.464 | |
| 3geg | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.464 | |
| 4eso | NAP | Putative oxidoreductase | / | 0.464 | |
| 1rkx | NAD | CDP-D-glucose-4,6-dehydratase | / | 0.463 | |
| 2c59 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.463 | |
| 1u7t | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.462 | |
| 4cql | NAD | Estradiol 17-beta-dehydrogenase 8 | 1.1.1.62 | 0.461 | |
| 2ztv | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.460 | |
| 1ie3 | NAD | Malate dehydrogenase | / | 0.458 | |
| 1nah | NAD | UDP-glucose 4-epimerase | 5.1.3.2 | 0.458 | |
| 3iah | NAP | Putative oxoacyl-(Acyl carrier protein) reductase | / | 0.458 | |
| 1eq2 | NAP | ADP-L-glycero-D-manno-heptose-6-epimerase | / | 0.457 | |
| 1nai | NAD | UDP-glucose 4-epimerase | 5.1.3.2 | 0.455 | |
| 2pzj | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.455 | |
| 1f8f | NAD | Benzyl alcohol dehydrogenase | / | 0.453 | |
| 2a92 | NAI | L-lactate dehydrogenase | / | 0.452 | |
| 4ej0 | NAP | ADP-L-glycero-D-manno-heptose-6-epimerase | / | 0.452 | |
| 2x6t | NAP | ADP-L-glycero-D-manno-heptose-6-epimerase | / | 0.451 | |
| 2ieb | ZID | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.450 | |
| 4imp | NDP | Polyketide synthase extender modules 3-4 | / | 0.447 | |
| 1cer | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.446 | |
| 3ruf | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.446 | |
| 4p8r | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.446 | |
| 5a1t | NAI | L-lactate dehydrogenase | / | 0.446 | |
| 1fdu | NAP | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.445 | |
| 2aa3 | AP0 | L-lactate dehydrogenase | / | 0.445 | |
| 4gll | NAD | UDP-glucuronic acid decarboxylase 1 | 4.1.1.35 | 0.445 | |
| 4o0l | NDP | NADPH-dependent 3-quinuclidinone reductase | / | 0.444 | |
| 3f1k | NAP | Uncharacterized oxidoreductase YciK | 1 | 0.443 | |
| 3ru7 | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.443 | |
| 4gl4 | NAI | Alcohol dehydrogenase class-3 | / | 0.443 | |
| 4qed | NAP | ElxO | / | 0.443 | |
| 3ruc | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.442 | |
| 1bxk | NAD | dTDP-glucose 4,6-dehydratase 2 | / | 0.441 | |
| 2b37 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.441 | |
| 2fzn | FAD | Bifunctional protein PutA | 1.5.5.2 | 0.441 | |
| 2hjr | APR | Malate dehydrogenase, adjacent gene encodes predicted lactate dehydrogenase | / | 0.441 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.441 | |
| 3uce | NDP | Dehydrogenase | / | 0.441 | |
| 3zdf | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.441 | |
| 5emh | NAP | Iridoid synthase | 1.3.1.99 | 0.441 | |
| 3ai3 | NDP | NADPH-sorbose reductase | / | 0.440 | |
| 4m87 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.440 |