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 |
|---|---|---|---|
| 4jbi | NDP | Alcohol dehydrogenase (Zinc) |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4jbi | NDP | Alcohol dehydrogenase (Zinc) | / | 1.393 | |
| 1yb5 | NAP | Quinone oxidoreductase | 1.6.5.5 | 0.734 | |
| 4xqc | NAD | Homospermidine synthase | 2.5.1.44 | 0.731 | |
| 4b7x | NAP | Probable oxidoreductase | / | 0.727 | |
| 1o8c | NDP | Probable acrylyl-CoA reductase AcuI | 1.3.1.84 | 0.725 | |
| 2gsd | NAD | Formate dehydrogenase | / | 0.721 | |
| 2nad | NAD | Formate dehydrogenase | / | 0.721 | |
| 3pdu | NAP | Glyoxalate/3-oxopropanoate/4-oxobutanoate reductase | / | 0.718 | |
| 4nu5 | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.715 | |
| 4xq9 | NAD | Homospermidine synthase | 2.5.1.44 | 0.713 | |
| 2vna | NAP | Prostaglandin reductase 2 | 1.3.1.48 | 0.711 | |
| 4y1b | NAP | AntE | / | 0.710 | |
| 4xrg | NAD | Homospermidine synthase | 2.5.1.44 | 0.708 | |
| 4e5m | NAP | Phosphonate dehydrogenase | 1.20.1.1 | 0.707 | |
| 2c29 | NAP | Dihydroflavonol 4-reductase | / | 0.706 | |
| 3anm | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.699 | |
| 2zb3 | NDP | Prostaglandin reductase 2 | 1.3.1.48 | 0.696 | |
| 3t4e | NAD | Quinate/shikimate dehydrogenase | / | 0.696 | |
| 1pjc | NAD | Alanine dehydrogenase | / | 0.695 | |
| 3tnl | NAD | Shikimate dehydrogenase (NADP(+)) | / | 0.695 | |
| 4tvb | NAD | Homospermidine synthase | 2.5.1.44 | 0.694 | |
| 2cvz | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.692 | |
| 1gq2 | NAP | NADP-dependent malic enzyme | 1.1.1.40 | 0.690 | |
| 1i36 | NAP | Conserved protein | / | 0.690 | |
| 3nx4 | NAP | Putative oxidoreductase | / | 0.689 | |
| 2vq3 | NAP | Metalloreductase STEAP3 | / | 0.680 | |
| 3w6u | NAP | 6-phosphogluconate dehydrogenase, NAD-binding protein | / | 0.680 | |
| 4hfm | NAP | 2-alkenal reductase (NADP(+)-dependent) | / | 0.679 | |
| 4ywj | NAD | 4-hydroxy-tetrahydrodipicolinate reductase | / | 0.679 | |
| 1do8 | NAD | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.678 | |
| 2c0c | NAP | Prostaglandin reductase 3 | 1 | 0.678 | |
| 1wp4 | NDP | 3-hydroxyisobutyrate dehydrogenase | / | 0.676 | |
| 3baz | NAP | Hydroxyphenylpyruvate reductase | 1.1.1.237 | 0.676 | |
| 4rvu | NDP | Probable quinone reductase Qor (NADPH:quinone reductase) (Zeta-crystallin homolog protein) | / | 0.675 | |
| 2dt5 | NAD | Redox-sensing transcriptional repressor Rex | / | 0.673 | |
| 2vhw | NAI | Alanine dehydrogenase | 1.4.1.1 | 0.671 | |
| 3wbb | NAP | Meso-diaminopimelate D-dehydrogenase | / | 0.669 | |
| 4xb2 | NDP | 319aa long hypothetical homoserine dehydrogenase | / | 0.668 | |
| 2ev9 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.667 | |
| 2gv8 | NDP | Thiol-specific monooxygenase | 1.14.13 | 0.666 | |
| 2j3k | NAP | NADPH-dependent oxidoreductase 2-alkenal reductase | 1.3.1.74 | 0.666 | |
| 4b8z | NAP | GDP-L-fucose synthase | 1.1.1.271 | 0.666 | |
| 4bv9 | NDP | Ketimine reductase mu-crystallin | 1.5.1.25 | 0.666 | |
| 4nu6 | NAD | Phosphonate dehydrogenase | 1.20.1.1 | 0.665 | |
| 3pef | NAP | Glyoxalate/3-oxopropanoate/4-oxobutanoate reductase | / | 0.664 | |
| 2vhz | NAI | Alanine dehydrogenase | 1.4.1.1 | 0.663 | |
| 4lcj | NAD | C-terminal-binding protein 2 | / | 0.662 | |
| 2jl1 | NAP | Triphenylmethane reductase | / | 0.661 | |
| 5doz | NDP | JamJ | / | 0.661 | |
| 2dbr | NAP | Glyoxylate reductase | 1.1.1.26 | 0.660 | |
| 3mvq | NDP | Glutamate dehydrogenase 1, mitochondrial | 1.4.1.3 | 0.660 | |
| 4o0l | NDP | NADPH-dependent 3-quinuclidinone reductase | / | 0.660 | |
| 1t2a | NDP | GDP-mannose 4,6 dehydratase | 4.2.1.47 | 0.659 | |
| 2f1k | NAP | Prephenate dehydrogenase | / | 0.659 | |
| 2yy7 | NAD | L-threonine dehydrogenase | / | 0.659 | |
| 3s55 | NAD | Putative short-chain dehydrogenase/reductase | / | 0.659 | |
| 1hld | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.658 | |
| 1a71 | NAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.657 | |
| 2y05 | NAP | Prostaglandin reductase 1 | / | 0.657 | |
| 3pzr | NAP | Aspartate-semialdehyde dehydrogenase 1 | / | 0.657 | |
| 1hsz | NAD | Alcohol dehydrogenase 1B | 1.1.1.1 | 0.656 | |
| 2g76 | NAD | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.656 | |
| 1piw | NAP | NADP-dependent alcohol dehydrogenase 6 | 1.1.1.2 | 0.655 | |
| 3n7u | NAD | Formate dehydrogenase, chloroplastic/mitochondrial | / | 0.655 | |
| 3qwb | NDP | Probable quinone oxidoreductase | 1.6.5.5 | 0.655 | |
| 3ing | NDP | Homoserine dehydrogenase related protein | / | 0.654 | |
| 3oq6 | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.654 | |
| 4weq | NAP | NAD-dependent dehydrogenase | / | 0.654 | |
| 1h6d | NDP | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.652 | |
| 1nff | NAD | 3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase | 1.1.1.53 | 0.652 | |
| 1x7d | NAD | Putative ornithine cyclodeaminase | / | 0.652 | |
| 1yqx | NAP | Sinapyl alcohol dehydrogenase | / | 0.652 | |
| 4rqu | NAD | Alcohol dehydrogenase class-P | / | 0.652 | |
| 4eb4 | UMP | Thymidylate synthase | 2.1.1.45 | 0.651 | |
| 1f8f | NAD | Benzyl alcohol dehydrogenase | / | 0.650 | |
| 2dbq | NAP | Glyoxylate reductase | 1.1.1.26 | 0.650 | |
| 4ng5 | NAJ | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.650 | |
| 4z0p | NDP | NAD-dependent dehydrogenase | / | 0.650 |