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 |
|---|---|---|---|
| 1yqx | NAP | Sinapyl alcohol dehydrogenase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 1yqx | NAP | Sinapyl alcohol dehydrogenase | / | 1.302 | |
| 1yqd | NAP | Sinapyl alcohol dehydrogenase | / | 1.133 | |
| 4gkv | NAD | Alcohol dehydrogenase, propanol-preferring | 1.1.1.1 | 0.913 | |
| 4oaq | NDP | R-specific carbonyl reductase | / | 0.904 | |
| 3oq6 | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.871 | |
| 4dxh | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.871 | |
| 4nfh | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.871 | |
| 5cds | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.871 | |
| 5cdt | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.871 | |
| 5kj6 | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.871 | |
| 5cdg | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.870 | |
| 4dwv | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.867 | |
| 5kcz | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.867 | |
| 5kje | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.867 | |
| 5kj1 | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.866 | |
| 1h2b | NAJ | NAD-dependent alcohol dehydrogenase | / | 0.865 | |
| 1hld | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.856 | |
| 5kjf | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.855 | |
| 2ohx | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.854 | |
| 3two | NDP | Mannitol dehydrogenase | / | 0.852 | |
| 1hsz | NAD | Alcohol dehydrogenase 1B | 1.1.1.1 | 0.849 | |
| 1r37 | NAD | NAD-dependent alcohol dehydrogenase | 1.1.1.1 | 0.843 | |
| 1mgo | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.841 | |
| 5kjc | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.840 | |
| 5kcp | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.831 | |
| 1hf3 | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.828 | |
| 1lde | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.827 | |
| 1axe | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.826 | |
| 1axg | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.825 | |
| 1ht0 | NAD | Alcohol dehydrogenase 1C | 1.1.1.1 | 0.822 | |
| 2oxi | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.821 | |
| 4ng5 | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.817 | |
| 1u3v | NAD | Alcohol dehydrogenase 1B | 1.1.1.1 | 0.810 | |
| 4nfs | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.802 | |
| 3wle | NAD | (R)-specific carbonyl reductase | / | 0.790 | |
| 1a71 | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.787 | |
| 4w6z | 8ID | Alcohol dehydrogenase 1 | 1.1.1.1 | 0.787 | |
| 3cos | NAD | Alcohol dehydrogenase 4 | 1.1.1.1 | 0.784 | |
| 4xd2 | NAI | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.776 | |
| 1qor | NDP | Quinone oxidoreductase 1 | / | 0.774 | |
| 1adc | PAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.763 | |
| 1llu | NAD | Alcohol dehydrogenase | / | 0.758 | |
| 5env | NAD | Alcohol dehydrogenase 1 | 1.1.1.1 | 0.752 | |
| 3nx4 | NAP | Putative oxidoreductase | / | 0.750 | |
| 4c4o | NAD | SADH | / | 0.746 | |
| 1heu | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.739 | |
| 1p0f | NAP | NADP-dependent alcohol dehydrogenase | 1.1.1.2 | 0.738 | |
| 1u7h | NAD | Putative ornithine cyclodeaminase | / | 0.737 | |
| 2eer | NAD | NAD-dependent alcohol dehydrogenase | 1.1.1.1 | 0.737 | |
| 1agn | NAD | Alcohol dehydrogenase class 4 mu/sigma chain | 1.1.1.1 | 0.735 | |
| 1hdz | NAD | Alcohol dehydrogenase 1B | 1.1.1.1 | 0.734 | |
| 1het | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.732 | |
| 4dlb | NAD | S-(hydroxymethyl)glutathione dehydrogenase | / | 0.731 | |
| 1x7d | NAD | Putative ornithine cyclodeaminase | / | 0.729 | |
| 2jhf | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.729 | |
| 1adb | CND | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.726 | |
| 3jyn | NDP | Quinone oxidoreductase | / | 0.724 | |
| 5a1t | NAI | L-lactate dehydrogenase | / | 0.722 | |
| 4nd4 | NAD | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.714 | |
| 4rqu | NAD | Alcohol dehydrogenase class-P | / | 0.711 | |
| 3d4p | NAD | L-lactate dehydrogenase 1 | 1.1.1.27 | 0.707 | |
| 1pzh | NAD | Lactate dehydrogenase | / | 0.706 | |
| 1t2d | NAD | L-lactate dehydrogenase | 1.1.1.27 | 0.705 | |
| 1uxj | NAD | Malate dehydrogenase | / | 0.704 | |
| 1piw | NAP | NADP-dependent alcohol dehydrogenase 6 | 1.1.1.2 | 0.701 | |
| 2voj | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.700 | |
| 4rvu | NDP | Probable quinone reductase Qor (NADPH:quinone reductase) (Zeta-crystallin homolog protein) | / | 0.700 | |
| 4nd2 | A3D | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.699 | |
| 2zb3 | NDP | Prostaglandin reductase 2 | 1.3.1.48 | 0.698 | |
| 3qwb | NDP | Probable quinone oxidoreductase | 1.6.5.5 | 0.696 | |
| 2xaa | NAD | Secondary alcohol dehydrogenase | / | 0.695 | |
| 4b7x | NAP | Probable oxidoreductase | / | 0.695 | |
| 4nd3 | NAD | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.695 | |
| 2dt5 | NAD | Redox-sensing transcriptional repressor Rex | / | 0.694 | |
| 3h3j | NAD | L-lactate dehydrogenase 1 | 1.1.1.27 | 0.694 | |
| 5a04 | NDP | Glucose-fructose oxidoreductase | / | 0.694 | |
| 2y05 | NAP | Prostaglandin reductase 1 | / | 0.693 | |
| 5a02 | NAP | Glucose-fructose oxidoreductase | / | 0.693 | |
| 4mdh | NAD | Malate dehydrogenase, cytoplasmic | 1.1.1.37 | 0.692 | |
| 1yb5 | NAP | Quinone oxidoreductase | 1.6.5.5 | 0.690 | |
| 2vwh | NAP | Glucose 1-dehydrogenase | / | 0.687 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.686 | |
| 1o6z | NAD | Malate dehydrogenase | / | 0.685 | |
| 2p5y | NAD | UDP-glucose 4-epimerase | / | 0.685 | |
| 3x2f | NAI | Adenosylhomocysteinase | / | 0.685 | |
| 2glx | NDP | 1,5-anhydro-D-fructose reductase | / | 0.684 | |
| 3hwr | NDP | 2-dehydropantoate 2-reductase | / | 0.683 | |
| 1rye | NDP | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.682 | |
| 2fn7 | NAD | Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase | / | 0.682 | |
| 4e5n | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.682 | |
| 4okn | NAI | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.682 | |
| 3pdu | NAP | Glyoxalate/3-oxopropanoate/4-oxobutanoate reductase | / | 0.681 | |
| 1lld | NAD | L-lactate dehydrogenase 2 | 1.1.1.27 | 0.679 | |
| 1j5p | NAD | L-aspartate dehydrogenase | 1.4.1.21 | 0.678 | |
| 4xgi | NAD | Glutamate dehydrogenase | / | 0.678 | |
| 3mvq | NDP | Glutamate dehydrogenase 1, mitochondrial | 1.4.1.3 | 0.677 | |
| 1sow | NAD | L-lactate dehydrogenase | 1.1.1.27 | 0.676 | |
| 2vhv | NAI | Alanine dehydrogenase | 1.4.1.1 | 0.676 | |
| 1o8c | NDP | Probable acrylyl-CoA reductase AcuI | 1.3.1.84 | 0.675 | |
| 2vna | NAP | Prostaglandin reductase 2 | 1.3.1.48 | 0.674 | |
| 2yy7 | NAD | L-threonine dehydrogenase | / | 0.674 | |
| 3pef | NAP | Glyoxalate/3-oxopropanoate/4-oxobutanoate reductase | / | 0.674 | |
| 4e5m | NAP | Phosphonate dehydrogenase | 1.20.1.1 | 0.674 | |
| 2dph | NAD | Formaldehyde dismutase | / | 0.673 | |
| 1gv0 | NAD | Malate dehydrogenase | / | 0.672 | |
| 1yl7 | NAI | 4-hydroxy-tetrahydrodipicolinate reductase | / | 0.671 | |
| 4ywj | NAD | 4-hydroxy-tetrahydrodipicolinate reductase | / | 0.671 | |
| 4dl9 | NAD | S-(hydroxymethyl)glutathione dehydrogenase | / | 0.669 | |
| 1wzi | NDP | Malate dehydrogenase | / | 0.668 | |
| 2g76 | NAD | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.668 | |
| 2o4c | NAD | Erythronate-4-phosphate dehydrogenase | / | 0.668 | |
| 4e5k | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.668 | |
| 1q0q | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.667 | |
| 1b8u | NAD | Malate dehydrogenase | / | 0.666 | |
| 1wwk | NAD | 307aa long hypothetical phosphoglycerate dehydrogenase | / | 0.666 | |
| 2h63 | NAP | Biliverdin reductase A | 1.3.1.24 | 0.666 | |
| 4nu5 | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.665 | |
| 4xrg | NAD | Homospermidine synthase | 2.5.1.44 | 0.665 | |
| 5a06 | NDP | Glucose-fructose oxidoreductase | / | 0.665 | |
| 1yba | NAD | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.664 | |
| 2dfd | NAD | Malate dehydrogenase, mitochondrial | 1.1.1.37 | 0.662 | |
| 5mdh | NAD | Malate dehydrogenase, cytoplasmic | 1.1.1.37 | 0.662 | |
| 1hyh | NAD | L-2-hydroxyisocaproate dehydrogenase | / | 0.661 | |
| 3lu1 | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.661 | |
| 4wlo | NAI | Malate dehydrogenase, mitochondrial | 1.1.1.37 | 0.661 | |
| 3wbb | NAP | Meso-diaminopimelate D-dehydrogenase | / | 0.660 | |
| 2q3e | NAI | UDP-glucose 6-dehydrogenase | 1.1.1.22 | 0.659 | |
| 1pjc | NAD | Alanine dehydrogenase | / | 0.658 | |
| 3anl | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.658 | |
| 3anm | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.658 | |
| 3q2k | NAI | Probable oxidoreductase | / | 0.658 | |
| 4i1i | NAD | Malate dehydrogenase | / | 0.658 | |
| 4z3d | NDP | Carbonyl reductase [NADPH] 1 | 1.1.1.184 | 0.658 | |
| 4pvd | NDP | NADPH-dependent methylglyoxal reductase GRE2 | / | 0.657 | |
| 1mp0 | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.656 | |
| 4plp | NAD | Homospermidine synthase | 2.5.1.44 | 0.656 | |
| 2c0c | NAP | Prostaglandin reductase 3 | 1 | 0.655 | |
| 4tvb | NAD | Homospermidine synthase | 2.5.1.44 | 0.655 | |
| 5ees | NAP | 4-hydroxy-tetrahydrodipicolinate reductase | / | 0.655 | |
| 1h6c | NDP | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.654 | |
| 2p9e | NAI | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.654 | |
| 3kb6 | NAD | D-lactate dehydrogenase | / | 0.654 | |
| 4emi | NAD | Toluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component | 1.18.1.3 | 0.654 | |
| 4y0k | NAP | AntE | / | 0.654 | |
| 1foa | UD1 | Alpha-1,3-mannosyl-glycoprotein 2-beta-N-acetylglucosaminyltransferase | 2.4.1.101 | 0.653 | |
| 3baz | NAP | Hydroxyphenylpyruvate reductase | 1.1.1.237 | 0.653 | |
| 4jbi | NDP | Alcohol dehydrogenase (Zinc) | / | 0.652 | |
| 1c1d | NAI | Phenylalanine dehydrogenase | / | 0.651 | |
| 2c29 | NAP | Dihydroflavonol 4-reductase | / | 0.651 | |
| 4lis | NAD | UDP-glucose 4-epimerase (Eurofung) | / | 0.651 | |
| 4y1b | NAP | AntE | / | 0.651 | |
| 1e3l | NAD | Alcohol dehydrogenase 4 | 1.1.1.1 | 0.650 | |
| 2gsd | NAD | Formate dehydrogenase | / | 0.650 | |
| 2oby | NAP | Quinone oxidoreductase PIG3 | 1 | 0.650 | |
| 4gi2 | NAP | Crotonyl-CoA carboxylase/reductase | / | 0.650 | |
| 4xqc | NAD | Homospermidine synthase | 2.5.1.44 | 0.650 |