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 |
|---|---|---|---|
| 3phi | NDP | Shikimate dehydrogenase (NADP(+)) |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3phi | NDP | Shikimate dehydrogenase (NADP(+)) | / | 1.194 | |
| 1nyt | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.867 | |
| 1vi2 | NAD | Quinate/shikimate dehydrogenase | / | 0.770 | |
| 3t4e | NAD | Quinate/shikimate dehydrogenase | / | 0.766 | |
| 1o9b | NAI | Quinate/shikimate dehydrogenase | / | 0.751 | |
| 1npd | NAD | Quinate/shikimate dehydrogenase | / | 0.747 | |
| 3uoz | NAP | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.735 | |
| 3up4 | NAP | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.726 | |
| 3uoy | NAP | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.723 | |
| 4d03 | NAP | Phenylacetone monooxygenase | 1.14.13.92 | 0.712 | |
| 3s5w | NAP | L-ornithine N(5)-monooxygenase | / | 0.710 | |
| 4ovi | N01 | Phenylacetone monooxygenase | 1.14.13.92 | 0.707 | |
| 5idw | NAP | Short-chain dehydrogenase/reductase SDR | / | 0.703 | |
| 3mvq | NDP | Glutamate dehydrogenase 1, mitochondrial | 1.4.1.3 | 0.700 | |
| 1lqu | NDP | NADPH-ferredoxin reductase FprA | 1.18.1.2 | 0.699 | |
| 3baz | NAP | Hydroxyphenylpyruvate reductase | 1.1.1.237 | 0.699 | |
| 3tnl | NAD | Shikimate dehydrogenase (NADP(+)) | / | 0.699 | |
| 4gcm | NAP | Thioredoxin reductase | 1.8.1.9 | 0.698 | |
| 4b65 | NDP | L-ornithine N(5)-monooxygenase | / | 0.697 | |
| 2vhw | NAI | Alanine dehydrogenase | 1.4.1.1 | 0.695 | |
| 2vhz | NAI | Alanine dehydrogenase | 1.4.1.1 | 0.691 | |
| 4weq | NAP | NAD-dependent dehydrogenase | / | 0.691 | |
| 2vq3 | NAP | Metalloreductase STEAP3 | / | 0.690 | |
| 2cy0 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.688 | |
| 4xcv | NDP | Probable hydroxyacid dehydrogenase protein | / | 0.688 | |
| 2ylx | NAP | Phenylacetone monooxygenase | 1.14.13.92 | 0.686 | |
| 2hk9 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.685 | |
| 5j23 | A2R | Putative 2-hydroxyacid dehydrogenase | / | 0.685 | |
| 3up5 | NAP | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.684 | |
| 2hk9 | ATR | Shikimate dehydrogenase (NADP(+)) | / | 0.681 | |
| 2ev9 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.676 | |
| 1pj2 | NAI | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.674 | |
| 4wji | NAP | Putative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase | / | 0.673 | |
| 2yjz | NAP | Metalloreductase STEAP4 | 1.16.1 | 0.672 | |
| 2jkv | NAP | 6-phosphogluconate dehydrogenase, decarboxylating | 1.1.1.44 | 0.670 | |
| 2ylt | NAP | Phenylacetone monooxygenase | 1.14.13.92 | 0.669 | |
| 1qmg | APX | Ketol-acid reductoisomerase, chloroplastic | 1.1.1.86 | 0.668 | |
| 5eio | NAP | [LysW]-L-2-aminoadipate 6-phosphate reductase | / | 0.668 | |
| 2dt5 | NAD | Redox-sensing transcriptional repressor Rex | / | 0.667 | |
| 4dc1 | NDP | Putative ketoacyl reductase | 1.3.1 | 0.667 | |
| 2q0l | NAP | Thioredoxin reductase | 1.8.1.9 | 0.666 | |
| 2nad | NAD | Formate dehydrogenase | / | 0.665 | |
| 3h3j | NAD | L-lactate dehydrogenase 1 | 1.1.1.27 | 0.664 | |
| 3toz | NAD | Shikimate dehydrogenase (NADP(+)) | / | 0.664 | |
| 4b66 | NAP | L-ornithine N(5)-monooxygenase | / | 0.664 | |
| 2vwq | NAP | Glucose 1-dehydrogenase | / | 0.663 | |
| 5a05 | NDP | Glucose-fructose oxidoreductase | / | 0.663 | |
| 2vwh | NAP | Glucose 1-dehydrogenase | / | 0.662 | |
| 4xye | NAD | Formate dehydrogenase | / | 0.662 | |
| 3ean | NAP | Thioredoxin reductase 1, cytoplasmic | 1.8.1.9 | 0.660 | |
| 4dbz | NDP | Putative ketoacyl reductase | 1.3.1 | 0.660 | |
| 1pj3 | NAD | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.659 | |
| 2xlu | NA7 | Putative flavin-containing monooxygenase | / | 0.659 | |
| 3two | NDP | Mannitol dehydrogenase | / | 0.659 | |
| 4b68 | NAP | L-ornithine N(5)-monooxygenase | / | 0.659 | |
| 4oaq | NDP | R-specific carbonyl reductase | / | 0.659 | |
| 1gq2 | NAP | NADP-dependent malic enzyme | 1.1.1.40 | 0.658 | |
| 2v6g | NAP | 3-oxo-Delta(4,5)-steroid 5-beta-reductase | / | 0.658 | |
| 4w6z | 8ID | Alcohol dehydrogenase 1 | 1.1.1.1 | 0.658 | |
| 4bv9 | NDP | Ketimine reductase mu-crystallin | 1.5.1.25 | 0.657 | |
| 5a03 | NDP | Glucose-fructose oxidoreductase | / | 0.657 | |
| 5bqf | NAP | Probable hydroxyacid dehydrogenase protein | / | 0.657 | |
| 2vqb | NAP | Putative flavin-containing monooxygenase | / | 0.656 | |
| 3mje | NDP | AmphB | / | 0.656 | |
| 2gn8 | NAP | UDP-N-acetylglucosamine 4,6-dehydratase (inverting) | 4.2.1.115 | 0.655 | |
| 4b64 | NAP | L-ornithine N(5)-monooxygenase | / | 0.655 | |
| 4z0p | NDP | NAD-dependent dehydrogenase | / | 0.653 | |
| 4tqg | NDP | Putative dTDP-d-glucose 4 6-dehydratase | / | 0.652 | |
| 4xb2 | NDP | 319aa long hypothetical homoserine dehydrogenase | / | 0.652 | |
| 2iyp | A2P | 6-phosphogluconate dehydrogenase, decarboxylating | 1.1.1.44 | 0.651 | |
| 3nt4 | NAI | Inositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase | 1.1.1.18 | 0.651 | |
| 4k28 | NAD | Shikimate dehydrogenase family protein | / | 0.650 | |
| 4qfy | DGT | Deoxynucleoside triphosphate triphosphohydrolase SAMHD1 | 3.1.5 | 0.650 |