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 |
|---|---|---|---|
| 4tqg | NDP | Putative dTDP-d-glucose 4 6-dehydratase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4tqg | NDP | Putative dTDP-d-glucose 4 6-dehydratase | / | 1.305 | |
| 3rku | NAP | NADP-dependent 3-hydroxy acid dehydrogenase | / | 0.845 | |
| 2gn8 | NAP | UDP-N-acetylglucosamine 4,6-dehydratase (inverting) | 4.2.1.115 | 0.841 | |
| 3p19 | NDP | Putative blue fluorescent protein | / | 0.838 | |
| 1xse | NDP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.828 | |
| 2jah | NDP | Clavaldehyde dehydrogenase | / | 0.815 | |
| 3l77 | NJP | Short-chain alcohol dehydrogenase | / | 0.813 | |
| 2c29 | NAP | Dihydroflavonol 4-reductase | / | 0.807 | |
| 4dc0 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.807 | |
| 4dc1 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.796 | |
| 3tn7 | NJP | Short-chain alcohol dehydrogenase | / | 0.795 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.793 | |
| 4j7u | NAP | Sepiapterin reductase | 1.1.1.153 | 0.791 | |
| 4b8z | NAP | GDP-L-fucose synthase | 1.1.1.271 | 0.787 | |
| 4hwk | NAP | Sepiapterin reductase | 1.1.1.153 | 0.785 | |
| 4j7x | NAP | Sepiapterin reductase | 1.1.1.153 | 0.783 | |
| 5d2e | NAP | MlnE | / | 0.780 | |
| 1w73 | NAP | 2,4-dienoyl-CoA reductase, mitochondrial | 1.3.1.34 | 0.768 | |
| 1n5d | NDP | Carbonyl reductase [NADPH] 1 | / | 0.765 | |
| 1xg5 | NAP | Dehydrogenase/reductase SDR family member 11 | / | 0.765 | |
| 2ekp | NAD | 2-deoxy-D-gluconate 3-dehydrogenase | / | 0.763 | |
| 1w8d | NAP | 2,4-dienoyl-CoA reductase, mitochondrial | 1.3.1.34 | 0.759 | |
| 4b8w | NAP | GDP-L-fucose synthase | 1.1.1.271 | 0.756 | |
| 2rbe | NDP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.749 | |
| 3qrw | NDP | Putative ketoacyl reductase | 1.3.1 | 0.749 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.749 | |
| 3uce | NDP | Dehydrogenase | / | 0.740 | |
| 1oaa | NAP | Sepiapterin reductase | 1.1.1.153 | 0.739 | |
| 4bms | NAP | Alclohol dehydrogenase/short-chain dehydrogenase | / | 0.738 | |
| 1x7g | NAP | Putative ketoacyl reductase | 1.3.1 | 0.733 | |
| 4dbz | NDP | Putative ketoacyl reductase | 1.3.1 | 0.733 | |
| 4fc7 | NAP | Peroxisomal 2,4-dienoyl-CoA reductase | 1.3.1.34 | 0.731 | |
| 2yut | NAP | Putative short-chain oxidoreductase | / | 0.729 | |
| 3ai3 | NDP | NADPH-sorbose reductase | / | 0.728 | |
| 1pr9 | NAP | L-xylulose reductase | 1.1.1.10 | 0.727 | |
| 1ipe | NDP | Tropinone reductase 2 | 1.1.1.236 | 0.726 | |
| 2q1t | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.725 | |
| 2v6g | NAP | 3-oxo-Delta(4,5)-steroid 5-beta-reductase | / | 0.723 | |
| 4dmm | NAP | 3-oxoacyl-[acyl-carrier-protein] reductase | / | 0.723 | |
| 2nnl | NAP | Dihydroflavonol 4-reductase | 1.1.1.219 | 0.722 | |
| 1bxk | NAD | dTDP-glucose 4,6-dehydratase 2 | / | 0.721 | |
| 2q1w | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.719 | |
| 4bmv | NAP | Short-chain dehydrogenase | / | 0.719 | |
| 3sxp | NAD | ADP-L-glycero-D-mannoheptose-6-epimerase | / | 0.716 | |
| 3w8d | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.716 | |
| 4hxy | NDP | Plm1 | / | 0.715 | |
| 1g1a | NAD | dTDP-glucose 4,6-dehydratase | / | 0.714 | |
| 3sj7 | NDP | 3-oxoacyl-(Acyl-carrier-protein) reductase, putative | / | 0.714 | |
| 4k6f | NAP | Putative Acetoacetyl-CoA reductase | / | 0.714 | |
| 1n7g | NDP | GDP-mannose 4,6 dehydratase 2 | 4.2.1.47 | 0.713 | |
| 2c54 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.713 | |
| 5eio | NAP | [LysW]-L-2-aminoadipate 6-phosphate reductase | / | 0.713 | |
| 1rkx | NAD | CDP-D-glucose-4,6-dehydratase | / | 0.711 | |
| 1h5q | NAP | NADP-dependent mannitol dehydrogenase | 1.1.1.138 | 0.710 | |
| 4twr | NAD | NAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase | / | 0.708 | |
| 2b4q | NAP | Rhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase | 1.1.1.100 | 0.707 | |
| 4u7w | NDP | MxaA | / | 0.707 | |
| 2ggs | NDP | dTDP-4-dehydrorhamnose reductase | / | 0.702 | |
| 3wmx | NAD | NAD dependent epimerase/dehydratase | / | 0.701 | |
| 4b79 | NAD | Probable short-chain dehydrogenase | / | 0.701 | |
| 4e5y | NDP | GDP-L-fucose synthase | 1.1.1.271 | 0.699 | |
| 1geg | NAD | Diacetyl reductase [(S)-acetoin forming] | 1.1.1.304 | 0.697 | |
| 1pno | NAP | NAD(P) transhydrogenase subunit beta | 1.6.1.2 | 0.697 | |
| 2d1y | NAD | Oxidoreductase, short-chain dehydrogenase/reductase family | / | 0.697 | |
| 2hrb | NAP | Carbonyl reductase [NADPH] 3 | 1.1.1.184 | 0.697 | |
| 4imp | NDP | Polyketide synthase extender modules 3-4 | / | 0.697 | |
| 2q1s | NAI | Putative nucleotide sugar epimerase/ dehydratase | / | 0.696 | |
| 2yy7 | NAD | L-threonine dehydrogenase | / | 0.696 | |
| 3o03 | NAP | Dehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) | / | 0.696 | |
| 3pef | NAP | Glyoxalate/3-oxopropanoate/4-oxobutanoate reductase | / | 0.695 | |
| 2dte | NAI | Glucose 1-dehydrogenase related protein | / | 0.693 | |
| 2jkv | NAP | 6-phosphogluconate dehydrogenase, decarboxylating | 1.1.1.44 | 0.691 | |
| 3baz | NAP | Hydroxyphenylpyruvate reductase | 1.1.1.237 | 0.691 | |
| 1zem | NAD | Xylitol dehydrogenase | / | 0.690 | |
| 4qec | NAP | ElxO | / | 0.690 | |
| 3aw9 | NAD | NAD-dependent epimerase/dehydratase | / | 0.689 | |
| 2ztl | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.687 | |
| 2ztv | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.687 | |
| 3w8f | NAD | 3-hydroxybutyrate dehydrogenase | / | 0.686 | |
| 3d3w | NAP | L-xylulose reductase | 1.1.1.10 | 0.685 | |
| 2c59 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.684 | |
| 3rua | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.682 | |
| 2q1u | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.681 | |
| 1n7h | NDP | GDP-mannose 4,6 dehydratase 2 | 4.2.1.47 | 0.679 | |
| 2hun | NAD | 336aa long hypothetical dTDP-glucose 4,6-dehydratase | / | 0.679 | |
| 3ruc | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.679 | |
| 1cyd | NDP | Carbonyl reductase [NADPH] 2 | 1.1.1.184 | 0.678 | |
| 2y99 | NAD | Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase | 1.3.1.56 | 0.678 | |
| 4qed | NAP | ElxO | / | 0.678 | |
| 2p5u | NAD | UDP-glucose 4-epimerase | / | 0.677 | |
| 2pzj | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.676 | |
| 3nug | NAD | Pyridoxal 4-dehydrogenase | 1.1.1.107 | 0.675 | |
| 4l4x | NDP | AmphI | / | 0.675 | |
| 4m55 | NAD | UDP-glucuronic acid decarboxylase 1 | 4.1.1.35 | 0.675 | |
| 3u4c | NDP | NADPH-dependent reductase BacG | / | 0.674 | |
| 3rud | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.673 | |
| 2cvz | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.671 | |
| 3bmo | NAP | Pteridine reductase | / | 0.671 | |
| 1w4z | NAP | Putative ketoacyl reductase | 1.3.1 | 0.670 | |
| 1xkq | NDP | Uncharacterized protein | / | 0.670 | |
| 3mje | NDP | AmphB | / | 0.670 | |
| 4lk3 | NAD | UDP-glucuronic acid decarboxylase 1 | 4.1.1.35 | 0.670 | |
| 4oqy | NDP | (S)-imine reductase | / | 0.670 | |
| 4rf2 | NAP | NADPH dependent R-specific alcohol dehydrogenase | / | 0.670 | |
| 5lc1 | NAD | L-threonine 3-dehydrogenase | / | 0.670 | |
| 1rwb | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.669 | |
| 2bd0 | NAP | Sepiapterin reductase | / | 0.668 | |
| 2o23 | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.668 | |
| 3gy0 | NAP | NAD(P)-dependent oxidoreductase | / | 0.668 | |
| 5ein | NAP | [LysW]-L-2-aminoadipate 6-phosphate reductase | / | 0.668 | |
| 3ru7 | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.666 | |
| 1wvg | APR | CDP-glucose 4,6-dehydratase | 4.2.1.45 | 0.665 | |
| 4ejm | NAP | Putative zinc-binding dehydrogenase | / | 0.665 | |
| 1bws | NDP | GDP-L-fucose synthase | / | 0.664 | |
| 3au8 | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic | 1.1.1.267 | 0.664 | |
| 3f1k | NAP | Uncharacterized oxidoreductase YciK | 1 | 0.664 | |
| 5idw | NAP | Short-chain dehydrogenase/reductase SDR | / | 0.664 | |
| 1sny | NAP | LD36273p | / | 0.663 | |
| 5jy1 | NAD | Putative short-chain dehydrogenase/reductase | / | 0.663 | |
| 1wp4 | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.662 | |
| 1yjq | NAP | 2-dehydropantoate 2-reductase | 1.1.1.169 | 0.662 | |
| 2p5y | NAD | UDP-glucose 4-epimerase | / | 0.662 | |
| 3iah | NAP | Putative oxoacyl-(Acyl carrier protein) reductase | / | 0.662 | |
| 5jyd | NAD | Short chain dehydrogenase | / | 0.662 | |
| 3o26 | NDP | Salutaridine reductase | / | 0.661 | |
| 3zhb | NAP | Putative dehydrogenase | / | 0.661 | |
| 1t2a | NDP | GDP-mannose 4,6 dehydratase | 4.2.1.47 | 0.660 | |
| 2q2v | NAD | Beta-D-hydroxybutyrate dehydrogenase | / | 0.660 | |
| 2zat | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.660 | |
| 3i6i | NDP | Putative leucoanthocyanidin reductase 1 | / | 0.660 | |
| 2bgm | NAJ | Secoisolariciresinol dehydrogenase | 1.1.1.331 | 0.659 | |
| 3bhi | NAP | Carbonyl reductase [NADPH] 1 | 1.1.1.184 | 0.659 | |
| 4n5n | NAP | Acetoacetyl-CoA reductase | 1.1.1.36 | 0.659 | |
| 3qwf | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.657 | |
| 3ruf | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.657 | |
| 3ruh | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.656 | |
| 3tox | NAP | Putative oxidoreductase | / | 0.656 | |
| 3uxy | NAD | Short-chain dehydrogenase/reductase SDR | / | 0.656 | |
| 4aic | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.656 | |
| 1dhr | NAD | Dihydropteridine reductase | 1.5.1.34 | 0.655 | |
| 2b69 | NAD | UDP-glucuronic acid decarboxylase 1 | 4.1.1.35 | 0.655 | |
| 4bii | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.655 | |
| 1g6k | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.654 | |
| 4wji | NAP | Putative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase | / | 0.654 | |
| 1rpn | NDP | GDP-mannose 4,6-dehydratase | / | 0.653 | |
| 3lu1 | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.653 | |
| 1x7h | NDP | Putative ketoacyl reductase | 1.3.1 | 0.652 | |
| 3phi | NDP | Shikimate dehydrogenase (NADP(+)) | / | 0.652 | |
| 4yr9 | NAD | L-threonine 3-dehydrogenase, mitochondrial | 1.1.1.103 | 0.652 | |
| 3a14 | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.651 | |
| 3ehe | NAD | UDP-glucose 4-epimerase (GalE-1) | / | 0.651 | |
| 3icp | NAD | NAD-dependent epimerase/dehydratase | / | 0.651 | |
| 1ae1 | NAP | Tropinone reductase 1 | / | 0.650 | |
| 1mg5 | NAI | Alcohol dehydrogenase | 1.1.1.1 | 0.650 | |
| 2jd0 | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.650 | |
| 2yw9 | NAP | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.650 | |
| 2z1m | NDP | GDP-mannose 4,6-dehydratase | / | 0.650 |