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 Modes are compared using Grim.
For more information, please see the following publication:
Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 2b4q | NAP | Rhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase | 1.1.1.100 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 2b4q | NAP | Rhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase | 1.1.1.100 | 1.524 | |
| 3o26 | NDP | Salutaridine reductase | / | 0.889 | |
| 3sj7 | NDP | 3-oxoacyl-(Acyl-carrier-protein) reductase, putative | / | 0.877 | |
| 4dbz | NDP | Putative ketoacyl reductase | 1.3.1 | 0.870 | |
| 3nug | NAD | Pyridoxal 4-dehydrogenase | 1.1.1.107 | 0.867 | |
| 1edo | NAP | 3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic | 1.1.1.100 | 0.863 | |
| 2dte | NAI | Glucose 1-dehydrogenase related protein | / | 0.863 | |
| 3p19 | NDP | Putative blue fluorescent protein | / | 0.861 | |
| 3w8e | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.852 | |
| 1x7h | NDP | Putative ketoacyl reductase | 1.3.1 | 0.851 | |
| 3ak4 | NAD | NADH-dependent quinuclidinone reductase | / | 0.851 | |
| 1h5q | NAP | NADP-dependent mannitol dehydrogenase | 1.1.1.138 | 0.847 | |
| 1vl8 | NAP | Oxidoreductase, short chain dehydrogenase/reductase family | / | 0.845 | |
| 3w8f | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.838 | |
| 3w8d | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.837 | |
| 2q2v | NAD | Beta-D-hydroxybutyrate dehydrogenase | / | 0.826 | |
| 4bmv | NAP | Short-chain dehydrogenase | / | 0.825 | |
| 5jsf | NAD | 17-beta-hydroxysteroid dehydrogenase 14 | 1.1.1 | 0.825 | |
| 4kwh | NAP | Reductase homolog | / | 0.823 | |
| 4b79 | NAD | Probable short-chain dehydrogenase | / | 0.820 | |
| 4j7u | NAP | Sepiapterin reductase | 1.1.1.153 | 0.815 | |
| 1ipe | NDP | Tropinone reductase 2 | 1.1.1.236 | 0.810 | |
| 3a28 | NAD | L-2,3-butanediol dehydrogenase | 1.1.1.76 | 0.807 | |
| 1n5d | NDP | Carbonyl reductase [NADPH] 1 | / | 0.806 | |
| 2ztl | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.805 | |
| 4dmm | NAP | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.805 | |
| 2ekp | NAD | 2-deoxy-D-gluconate 3-dehydrogenase | / | 0.804 | |
| 3bhi | NAP | Carbonyl reductase [NADPH] 1 | 1.1.1.184 | 0.802 | |
| 3ai2 | NDP | NADPH-sorbose reductase | / | 0.799 | |
| 4hwk | NAP | Sepiapterin reductase | 1.1.1.153 | 0.798 | |
| 3iah | NAP | Putative oxoacyl-(Acyl carrier protein) reductase | / | 0.797 | |
| 2d1y | NAD | Oxidoreductase, short-chain dehydrogenase/reductase family | / | 0.796 | |
| 2o23 | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.796 | |
| 5d2e | NAP | MlnE | / | 0.796 | |
| 5js6 | NAD | 17-beta-hydroxysteroid dehydrogenase 14 | 1.1.1 | 0.794 | |
| 4is3 | NAD | 3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 | 1.17.98.1 | 0.791 | |
| 1x7g | NAP | Putative ketoacyl reductase | 1.3.1 | 0.790 | |
| 4hxy | NDP | Plm1 | / | 0.788 | |
| 2ztv | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.787 | |
| 2ztm | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.786 | |
| 4nbt | NAD | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.786 | |
| 2hrb | NAP | Carbonyl reductase [NADPH] 3 | 1.1.1.184 | 0.785 | |
| 3wds | NAD | NADH-dependent quinuclidinone reductase | / | 0.785 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.784 | |
| 4iqg | NAP | Short-chain dehydrogenase/reductase SDR | / | 0.783 | |
| 4z3d | NDP | Carbonyl reductase [NADPH] 1 | 1.1.1.184 | 0.783 | |
| 4hbg | NDP | 3-oxoacyl-[acyl-carrier-protein] reductase | 1.1.1.100 | 0.780 | |
| 3l77 | NJP | Short-chain alcohol dehydrogenase | / | 0.776 | |
| 3uce | NDP | Dehydrogenase | / | 0.776 | |
| 4fj2 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.775 | |
| 1geg | NAD | Diacetyl reductase [(S)-acetoin forming] | 1.1.1.304 | 0.774 | |
| 4eso | NAP | Putative oxidoreductase | / | 0.773 | |
| 3gy0 | NAP | NAD(P)-dependent oxidoreductase | / | 0.770 | |
| 1pr9 | NAP | L-xylulose reductase | 1.1.1.10 | 0.769 | |
| 3ai3 | NDP | NADPH-sorbose reductase | / | 0.769 | |
| 2nnl | NAP | Dihydroflavonol 4-reductase | 1.1.1.219 | 0.768 | |
| 4dc1 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.768 | |
| 1xse | NDP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.767 | |
| 2p5y | NAD | UDP-glucose 4-epimerase | / | 0.767 | |
| 5jla | NAD | Putative short-chain dehydrogenase/reductase | / | 0.766 | |
| 1gco | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.765 | |
| 1gee | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.765 | |
| 3r3s | NAD | Putative oxidoreductase | / | 0.765 | |
| 4dc0 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.765 | |
| 3tn7 | NJP | Short-chain alcohol dehydrogenase | / | 0.764 | |
| 1xkq | NDP | Uncharacterized protein | / | 0.763 | |
| 3qrw | NDP | Putative ketoacyl reductase | 1.3.1 | 0.763 | |
| 4j7x | NAP | Sepiapterin reductase | 1.1.1.153 | 0.762 | |
| 3d3w | NAP | L-xylulose reductase | 1.1.1.10 | 0.759 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.759 | |
| 4fc7 | NAP | Peroxisomal 2,4-dienoyl-CoA reductase | 1.3.1.34 | 0.759 | |
| 2ztu | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.754 | |
| 4zju | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.745 | |
| 4hp8 | NAP | 2-deoxy-D-gluconate 3-dehydrogenase | / | 0.743 | |
| 4pvd | NDP | NADPH-dependent methylglyoxal reductase GRE2 | / | 0.740 | |
| 1ae1 | NAP | Tropinone reductase 1 | / | 0.739 | |
| 1cyd | NDP | Carbonyl reductase [NADPH] 2 | 1.1.1.184 | 0.737 | |
| 3vdq | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.737 | |
| 2bd0 | NAP | Sepiapterin reductase | / | 0.735 | |
| 4yai | NAI | C alpha-dehydrogenase | / | 0.733 | |
| 1e3w | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.732 | |
| 3o03 | NAP | Dehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) | / | 0.732 | |
| 4fj1 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.730 | |
| 4qec | NAP | ElxO | / | 0.729 | |
| 2dkn | NAI | 3-alpha-hydroxysteroid dehydrogenase | / | 0.728 | |
| 2q2q | NAD | Beta-D-hydroxybutyrate dehydrogenase | / | 0.727 | |
| 5jy1 | NAD | Putative short-chain dehydrogenase/reductase | / | 0.727 | |
| 4yag | NAI | C alpha-dehydrogenase | / | 0.726 | |
| 4gh5 | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.723 | |
| 1sny | NAP | LD36273p | / | 0.721 | |
| 1nfr | NAD | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.720 | |
| 1oaa | NAP | Sepiapterin reductase | 1.1.1.153 | 0.720 | |
| 4wec | NAD | Short chain dehydrogenase | / | 0.720 | |
| 3tsc | NAD | Uncharacterized protein | / | 0.719 | |
| 4fw8 | NAI | 3-oxoacyl-(Acyl-carrier-protein) reductase | / | 0.719 | |
| 1e3s | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.718 | |
| 3lu1 | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.717 | |
| 2gdz | NAD | 15-hydroxyprostaglandin dehydrogenase [NAD(+)] | 1.1.1.141 | 0.716 | |
| 4k6f | NAP | Putative Acetoacetyl-CoA reductase | / | 0.716 | |
| 3wmx | NAD | NAD dependent epimerase/dehydratase | / | 0.714 | |
| 2c29 | NAP | Dihydroflavonol 4-reductase | / | 0.712 | |
| 4qed | NAP | ElxO | / | 0.712 | |
| 3orf | NAD | Dihydropteridine reductase | 1.5.1.34 | 0.711 | |
| 3rku | NAP | NADP-dependent 3-hydroxy acid dehydrogenase | / | 0.711 | |
| 1e6w | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.710 | |
| 1w4z | NAP | Putative ketoacyl reductase | 1.3.1 | 0.710 | |
| 3f1k | NAP | Uncharacterized oxidoreductase YciK | 1 | 0.710 | |
| 4u7w | NDP | MxaA | / | 0.710 | |
| 2wsb | NAD | Galactitol dehydrogenase | / | 0.708 | |
| 3sju | NDP | Keto reductase | / | 0.708 | |
| 4tqg | NDP | Putative dTDP-d-glucose 4 6-dehydratase | / | 0.707 | |
| 3ijr | NAD | Oxidoreductase, short chain dehydrogenase/reductase family | / | 0.705 | |
| 1rwb | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.704 | |
| 3pgx | NAD | Uncharacterized NAD-dependent oxidoreductase MAP_4146 | / | 0.703 | |
| 5jyd | NAD | Short chain dehydrogenase | / | 0.703 | |
| 2rbe | NDP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.702 | |
| 3ndr | NAD | Pyridoxal 4-dehydrogenase | 1.1.1.107 | 0.700 | |
| 5ig2 | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.699 | |
| 2q1s | NAI | Putative nucleotide sugar epimerase/ dehydratase | / | 0.698 | |
| 4fn4 | NAD | Short chain dehydrogenase | / | 0.698 | |
| 1g6k | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.697 | |
| 3u4c | NDP | NADPH-dependent reductase BacG | / | 0.697 | |
| 4nbw | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.697 | |
| 3h4v | NAP | Pteridine reductase 1 | 1.5.1.33 | 0.696 | |
| 1g0n | NDP | Tetrahydroxynaphthalene reductase | 1.1.1.252 | 0.694 | |
| 1nff | NAD | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.693 | |
| 2p5u | NAD | UDP-glucose 4-epimerase | / | 0.693 | |
| 1b16 | NAQ | Alcohol dehydrogenase | 1.1.1.1 | 0.690 | |
| 1bdb | NAD | Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase | / | 0.690 | |
| 1u7t | TDT | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.690 | |
| 2pzj | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.689 | |
| 2q1t | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.688 | |
| 3o4r | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.688 | |
| 4bms | NAP | Alclohol dehydrogenase/short-chain dehydrogenase | / | 0.687 | |
| 2yw9 | NAP | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.686 | |
| 1xg5 | NAP | Dehydrogenase/reductase SDR family member 11 | / | 0.685 | |
| 2wdz | NAD | Galactitol dehydrogenase | / | 0.685 | |
| 1qyv | NAP | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.684 | |
| 3rue | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.684 | |
| 4bgi | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.684 | |
| 5idw | NAP | Short-chain dehydrogenase/reductase SDR | / | 0.684 | |
| 2q1u | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.683 | |
| 3mje | NDP | AmphB | / | 0.683 | |
| 2bfo | NDP | Pteridine reductase 1 | 1.5.1.33 | 0.682 | |
| 1n7g | NDP | GDP-mannose 4,6 dehydratase 2 | 4.2.1.47 | 0.681 | |
| 3qwf | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.681 | |
| 1rpn | NDP | GDP-mannose 4,6-dehydratase | / | 0.680 | |
| 2ag5 | NAD | 3-hydroxybutyrate dehydrogenase type 2 | / | 0.679 | |
| 3bmo | NAP | Pteridine reductase | / | 0.679 | |
| 3rj9 | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.677 | |
| 4fj0 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.677 | |
| 4nbu | NAI | 3-oxoacyl-(Acyl-carrier-protein) reductase | / | 0.676 | |
| 3sx2 | NAD | Uncharacterized protein | / | 0.675 | |
| 3ruc | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.674 | |
| 3s55 | NAD | Putative short-chain dehydrogenase/reductase | / | 0.674 | |
| 1b2l | NDC | Alcohol dehydrogenase | 1.1.1.1 | 0.673 | |
| 1fdu | NAP | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.672 | |
| 1iy8 | NAD | Levodione reductase | / | 0.672 | |
| 1eny | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.671 | |
| 1zem | NAD | Xylitol dehydrogenase | / | 0.671 | |
| 2yy7 | NAD | L-threonine dehydrogenase | / | 0.671 | |
| 2wyv | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.670 | |
| 4cql | NAD | Estradiol 17-beta-dehydrogenase 8 | 1.1.1.62 | 0.670 | |
| 4n5n | NAP | Acetoacetyl-CoA reductase | 1.1.1.36 | 0.670 | |
| 4qxm | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.670 | |
| 2bgm | NAJ | Secoisolariciresinol dehydrogenase | 1.1.1.331 | 0.669 | |
| 2gn8 | NAP | UDP-N-acetylglucosamine 4,6-dehydratase (inverting) | 4.2.1.115 | 0.669 | |
| 2jah | NDP | Clavaldehyde dehydrogenase | / | 0.669 | |
| 1enz | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.668 | |
| 3ru7 | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.668 | |
| 1nah | NAD | UDP-glucose 4-epimerase | 5.1.3.2 | 0.667 | |
| 3oew | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.666 | |
| 1w8d | NAP | 2,4-dienoyl-CoA reductase, mitochondrial | 1.3.1.34 | 0.665 | |
| 3aw9 | NAD | NAD-dependent epimerase/dehydratase | / | 0.664 | |
| 1w73 | NAP | 2,4-dienoyl-CoA reductase, mitochondrial | 1.3.1.34 | 0.663 | |
| 3aut | NAI | Glucose 1-dehydrogenase 4 | 1.1.1.47 | 0.663 | |
| 1u7t | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.662 | |
| 2zat | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.662 | |
| 4b8z | NAP | GDP-L-fucose synthase | 1.1.1.271 | 0.662 | |
| 1cf2 | NAP | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.661 | |
| 4i5e | NAP | Alclohol dehydrogenase/short-chain dehydrogenase | / | 0.661 | |
| 2nq8 | ZID | Enoyl-ACP reductase | / | 0.660 | |
| 4y9d | NAI | C alpha-dehydrogenase | / | 0.660 | |
| 1e7y | NDP | Glucose-6-phosphate 1-dehydrogenase | / | 0.659 | |
| 4bii | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.659 | |
| 4rf2 | NAP | NADPH dependent R-specific alcohol dehydrogenase | / | 0.659 | |
| 2c54 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.658 | |
| 2pr2 | DG1 | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.658 | |
| 3a9w | NAD | NDP-sugar epimerase | / | 0.658 | |
| 3ajr | NAD | NDP-sugar epimerase | / | 0.658 | |
| 2aq8 | NAI | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.657 | |
| 1b15 | NAE | Alcohol dehydrogenase | 1.1.1.1 | 0.656 | |
| 1p44 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.656 | |
| 2b35 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.655 | |
| 3of2 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.655 | |
| 4e5y | NDP | GDP-L-fucose synthase | 1.1.1.271 | 0.655 | |
| 2h9i | EAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.654 | |
| 2yut | NAP | Putative short-chain oxidoreductase | / | 0.654 | |
| 3uxy | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.654 | |
| 3i6i | NDP | Putative leucoanthocyanidin reductase 1 | / | 0.653 | |
| 4o0l | NDP | NADPH-dependent 3-quinuclidinone reductase | / | 0.650 |