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 |
|---|---|---|---|
| 1iy8 | NAD | Levodione reductase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1iy8 | NAD | Levodione reductase | / | 1.000 | |
| 1e3w | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.625 | |
| 1e6w | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.615 | |
| 2dkn | NAI | 3-alpha-hydroxysteroid dehydrogenase | / | 0.604 | |
| 5jla | NAD | Putative short-chain dehydrogenase/reductase | / | 0.596 | |
| 2wsb | NAD | Galactitol dehydrogenase | / | 0.592 | |
| 1u7t | TDT | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.585 | |
| 4gh5 | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.576 | |
| 1e3s | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.573 | |
| 2ewm | NAD | (S)-1-Phenylethanol dehydrogenase | 1.1.1.311 | 0.562 | |
| 2wdz | NAD | Galactitol dehydrogenase | / | 0.558 | |
| 4fw8 | NAI | 3-oxoacyl-(Acyl-carrier-protein) reductase | / | 0.557 | |
| 4fn4 | NAD | Short chain dehydrogenase | / | 0.555 | |
| 3nug | NAD | Pyridoxal 4-dehydrogenase | 1.1.1.107 | 0.553 | |
| 3wds | NAD | NADH-dependent quinuclidinone reductase | / | 0.552 | |
| 4nbt | NAD | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.552 | |
| 4yai | NAI | C alpha-dehydrogenase | / | 0.552 | |
| 3a28 | NAD | L-2,3-butanediol dehydrogenase | 1.1.1.76 | 0.549 | |
| 3ndr | NAD | Pyridoxal 4-dehydrogenase | 1.1.1.107 | 0.548 | |
| 4yag | NAI | C alpha-dehydrogenase | / | 0.545 | |
| 2dte | NAI | Glucose 1-dehydrogenase related protein | / | 0.541 | |
| 2ztm | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.541 | |
| 3ak4 | NAD | NADH-dependent quinuclidinone reductase | / | 0.540 | |
| 2gdz | NAD | 15-hydroxyprostaglandin dehydrogenase [NAD(+)] | 1.1.1.141 | 0.538 | |
| 1nff | NAD | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.537 | |
| 1ipe | NDP | Tropinone reductase 2 | 1.1.1.236 | 0.536 | |
| 3sx2 | NAD | Uncharacterized protein | / | 0.535 | |
| 3rj9 | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.534 | |
| 3s55 | NAD | Putative short-chain dehydrogenase/reductase | / | 0.534 | |
| 4nbu | NAI | 3-oxoacyl-(Acyl-carrier-protein) reductase | / | 0.534 | |
| 4nbw | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.532 | |
| 1cyd | NDP | Carbonyl reductase [NADPH] 2 | 1.1.1.184 | 0.531 | |
| 1geg | NAD | Diacetyl reductase [(S)-acetoin forming] | 1.1.1.304 | 0.531 | |
| 3rj5 | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.531 | |
| 1edo | NAP | 3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic | 1.1.1.100 | 0.530 | |
| 1b15 | NAE | Alcohol dehydrogenase | 1.1.1.1 | 0.529 | |
| 3d3w | NAP | L-xylulose reductase | 1.1.1.10 | 0.529 | |
| 5lc1 | NAD | L-threonine 3-dehydrogenase | / | 0.529 | |
| 3bhi | NAP | Carbonyl reductase [NADPH] 1 | 1.1.1.184 | 0.528 | |
| 5jsf | NAD | 17-beta-hydroxysteroid dehydrogenase 14 | 1.1.1 | 0.526 | |
| 1nfr | NAD | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.525 | |
| 1sby | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.524 | |
| 1wnt | NAP | L-xylulose reductase | 1.1.1.10 | 0.524 | |
| 3ijr | NAD | Oxidoreductase, short chain dehydrogenase/reductase family | / | 0.524 | |
| 1g0n | NDP | Tetrahydroxynaphthalene reductase | 1.1.1.252 | 0.522 | |
| 1mg5 | NAI | Alcohol dehydrogenase | 1.1.1.1 | 0.522 | |
| 2q2v | NAD | Beta-D-hydroxybutyrate dehydrogenase | / | 0.522 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.521 | |
| 3w8e | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.521 | |
| 1ae1 | NAP | Tropinone reductase 1 | / | 0.518 | |
| 3w8f | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.518 | |
| 4j7u | NAP | Sepiapterin reductase | 1.1.1.153 | 0.516 | |
| 1zem | NAD | Xylitol dehydrogenase | / | 0.515 | |
| 3uxy | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.513 | |
| 5js6 | NAD | 17-beta-hydroxysteroid dehydrogenase 14 | 1.1.1 | 0.513 | |
| 1pr9 | NAP | L-xylulose reductase | 1.1.1.10 | 0.511 | |
| 4z3d | NDP | Carbonyl reductase [NADPH] 1 | 1.1.1.184 | 0.511 | |
| 2d1y | NAD | Oxidoreductase, short-chain dehydrogenase/reductase family | / | 0.510 | |
| 4i5e | NAP | Alclohol dehydrogenase/short-chain dehydrogenase | / | 0.510 | |
| 4cql | NAD | Estradiol 17-beta-dehydrogenase 8 | 1.1.1.62 | 0.508 | |
| 4iqg | NAP | Short-chain dehydrogenase/reductase SDR | / | 0.508 | |
| 3w8d | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.507 | |
| 5jyd | NAD | Short chain dehydrogenase | / | 0.507 | |
| 3tox | NAP | Putative oxidoreductase | / | 0.506 | |
| 3a4v | NAD | NDP-sugar epimerase | / | 0.505 | |
| 3pgx | NAD | Uncharacterized NAD-dependent oxidoreductase MAP_4146 | / | 0.505 | |
| 4dc1 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.505 | |
| 3iah | NAP | Putative oxoacyl-(Acyl carrier protein) reductase | / | 0.504 | |
| 3qwf | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.504 | |
| 5jy1 | NAD | Putative short-chain dehydrogenase/reductase | / | 0.504 | |
| 1b16 | NAQ | Alcohol dehydrogenase | 1.1.1.1 | 0.503 | |
| 5idw | NAP | Short-chain dehydrogenase/reductase SDR | / | 0.503 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.502 | |
| 1w4z | NAP | Putative ketoacyl reductase | 1.3.1 | 0.501 | |
| 3vdq | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.501 | |
| 4hwk | NAP | Sepiapterin reductase | 1.1.1.153 | 0.501 | |
| 3sju | NDP | Keto reductase | / | 0.500 | |
| 4qec | NAP | ElxO | / | 0.500 | |
| 2ag5 | NAD | 3-hydroxybutyrate dehydrogenase type 2 | / | 0.499 | |
| 2ztl | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.499 | |
| 4j7x | NAP | Sepiapterin reductase | 1.1.1.153 | 0.499 | |
| 1b14 | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.498 | |
| 1gco | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.498 | |
| 3p19 | NDP | Putative blue fluorescent protein | / | 0.498 | |
| 1gee | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.497 | |
| 1sny | NAP | LD36273p | / | 0.497 | |
| 1n5d | NDP | Carbonyl reductase [NADPH] 1 | / | 0.496 | |
| 3gy0 | NAP | NAD(P)-dependent oxidoreductase | / | 0.496 | |
| 3o4r | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.496 | |
| 4idg | NAD | Putative UDP-glucose 4-epimerase | / | 0.496 | |
| 2hsd | NAD | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.495 | |
| 3tsc | NAD | Uncharacterized protein | / | 0.495 | |
| 3a1n | NAD | NDP-sugar epimerase | / | 0.494 | |
| 4bmv | NAP | Short-chain dehydrogenase | / | 0.494 | |
| 4fj1 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.493 | |
| 4is3 | NAD | 3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 | 1.17.98.1 | 0.493 | |
| 4bms | NAP | Alclohol dehydrogenase/short-chain dehydrogenase | / | 0.492 | |
| 5ig2 | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.491 | |
| 1x7h | NDP | Putative ketoacyl reductase | 1.3.1 | 0.490 | |
| 2ekp | NAD | 2-deoxy-D-gluconate 3-dehydrogenase | / | 0.489 | |
| 3qrw | NDP | Putative ketoacyl reductase | 1.3.1 | 0.488 | |
| 1xg5 | NAP | Dehydrogenase/reductase SDR family member 11 | / | 0.487 | |
| 1xkq | NDP | Uncharacterized protein | / | 0.487 | |
| 1xse | NDP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.486 | |
| 4rf2 | NAP | NADPH dependent R-specific alcohol dehydrogenase | / | 0.486 | |
| 2bd0 | NAP | Sepiapterin reductase | / | 0.485 | |
| 2jah | NDP | Clavaldehyde dehydrogenase | / | 0.485 | |
| 2q2q | NAD | Beta-D-hydroxybutyrate dehydrogenase | / | 0.485 | |
| 1vl8 | NAP | Oxidoreductase, short chain dehydrogenase/reductase family | / | 0.482 | |
| 4fj2 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.482 | |
| 1rwb | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.480 | |
| 4yr9 | NAD | L-threonine 3-dehydrogenase, mitochondrial | 1.1.1.103 | 0.480 | |
| 2yy7 | NAD | L-threonine dehydrogenase | / | 0.479 | |
| 2wyv | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.476 | |
| 4fj0 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.476 | |
| 1kvr | NAD | UDP-glucose 4-epimerase | 5.1.3.2 | 0.475 | |
| 1x7g | NAP | Putative ketoacyl reductase | 1.3.1 | 0.474 | |
| 2c59 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.474 | |
| 2zat | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.473 | |
| 3r3s | NAD | Putative oxidoreductase | / | 0.470 | |
| 4gl4 | NAI | Alcohol dehydrogenase class-3 | / | 0.467 | |
| 4qed | NAP | ElxO | / | 0.467 | |
| 1oaa | NAP | Sepiapterin reductase | 1.1.1.153 | 0.465 | |
| 2p5u | NAD | UDP-glucose 4-epimerase | / | 0.465 | |
| 4b79 | NAD | Probable short-chain dehydrogenase | / | 0.465 | |
| 1ie3 | NAD | Malate dehydrogenase | / | 0.464 | |
| 1sow | NAD | L-lactate dehydrogenase | 1.1.1.27 | 0.464 | |
| 1z7e | ATP | Bifunctional polymyxin resistance protein ArnA | / | 0.464 | |
| 3ai2 | NDP | NADPH-sorbose reductase | / | 0.464 | |
| 3tn7 | NJP | Short-chain alcohol dehydrogenase | / | 0.464 | |
| 3geg | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.461 | |
| 1u7t | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.460 | |
| 2a92 | NAI | L-lactate dehydrogenase | / | 0.460 | |
| 4ej0 | NAP | ADP-L-glycero-D-manno-heptose-6-epimerase | / | 0.460 | |
| 3f1k | NAP | Uncharacterized oxidoreductase YciK | 1 | 0.459 | |
| 1i3l | NAD | UDP-glucose 4-epimerase | / | 0.458 | |
| 2c54 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.458 | |
| 3syi | FAD | Sulfide-quinone reductase | / | 0.458 | |
| 4jji | NAD | Alcohol dehydrogenase class-3 | / | 0.458 | |
| 4oxy | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.458 | |
| 1g6k | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.457 | |
| 2yut | NAP | Putative short-chain oxidoreductase | / | 0.457 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.456 | |
| 3l77 | NJP | Short-chain alcohol dehydrogenase | / | 0.456 | |
| 5dbg | NAD | Iridoid synthase | 1.3.1.99 | 0.456 | |
| 5mdh | NAD | Malate dehydrogenase, cytoplasmic | 1.1.1.37 | 0.456 | |
| 1i2b | NAD | UDP-sulfoquinovose synthase, chloroplastic | 3.13.1.1 | 0.455 | |
| 4cpd | NAD | Alcohol dehydrogenase | / | 0.455 | |
| 3rku | NAP | NADP-dependent 3-hydroxy acid dehydrogenase | / | 0.454 | |
| 4m87 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.453 | |
| 1nah | NAD | UDP-glucose 4-epimerase | 5.1.3.2 | 0.452 | |
| 4dmm | NAP | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.452 | |
| 4fc7 | NAP | Peroxisomal 2,4-dienoyl-CoA reductase | 1.3.1.34 | 0.452 | |
| 4o1m | NAD | Enoyl-acyl carrier reductase | / | 0.452 | |
| 1f8w | FAD | NADH peroxidase | 1.11.1.1 | 0.451 | |
| 4nfh | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.451 | |
| 4wlv | NAD | Malate dehydrogenase, mitochondrial | 1.1.1.37 | 0.451 | |
| 1cdo | NAD | Alcohol dehydrogenase 1 | 1.1.1.1 | 0.450 | |
| 2x6t | NAP | ADP-L-glycero-D-manno-heptose-6-epimerase | / | 0.450 | |
| 2ztv | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.450 | |
| 2ohx | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.449 | |
| 2x86 | NAP | ADP-L-glycero-D-manno-heptose-6-epimerase | / | 0.449 | |
| 3aw9 | NAD | NAD-dependent epimerase/dehydratase | / | 0.448 | |
| 4dwv | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.448 | |
| 3uce | NDP | Dehydrogenase | / | 0.447 | |
| 3wmx | NAD | NAD dependent epimerase/dehydratase | / | 0.447 | |
| 4eso | NAP | Putative oxidoreductase | / | 0.446 | |
| 1pzg | A3D | Lactate dehydrogenase | / | 0.445 | |
| 2b37 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.445 | |
| 3kpk | FAD | Sulfide-quinone reductase | / | 0.445 | |
| 3sz0 | FAD | Sulfide-quinone reductase | / | 0.445 | |
| 1eq2 | NAP | ADP-L-glycero-D-manno-heptose-6-epimerase | / | 0.444 | |
| 2pa3 | NAI | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.444 | |
| 2rbe | NDP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.444 | |
| 4imp | NDP | Polyketide synthase extender modules 3-4 | / | 0.444 | |
| 4ng5 | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.444 | |
| 2ydx | NAP | Methionine adenosyltransferase 2 subunit beta | / | 0.443 | |
| 3t2z | FAD | Sulfide-quinone reductase | / | 0.443 | |
| 3ai3 | NDP | NADPH-sorbose reductase | / | 0.442 | |
| 3ggo | NAI | Prephenate dehydrogenase | / | 0.442 | |
| 1h5q | NAP | NADP-dependent mannitol dehydrogenase | 1.1.1.138 | 0.441 | |
| 4nd2 | A3D | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.441 | |
| 2c20 | NAD | UDP-glucose 4-epimerase | / | 0.440 | |
| 3t2k | FAD | Sulfide-quinone reductase | / | 0.440 | |
| 4bkq | NAI | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.440 | |
| 5emh | NAP | Iridoid synthase | 1.3.1.99 | 0.440 |