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 |
|---|---|---|---|
| 2ag1 | TPP | Benzaldehyde lyase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 2ag1 | TPP | Benzaldehyde lyase | / | 1.204 | |
| 2uz1 | TPP | Benzaldehyde lyase | / | 1.032 | |
| 3d7k | D7K | Benzaldehyde lyase | / | 0.996 | |
| 2ag0 | TPP | Benzaldehyde lyase | / | 0.973 | |
| 3iae | D7K | Benzaldehyde lyase | / | 0.796 | |
| 4qpz | TPP | Benzaldehyde lyase | / | 0.767 | |
| 1upa | TPP | N(2)-(2-carboxyethyl)arginine synthase | / | 0.752 | |
| 3eya | TDP | Pyruvate dehydrogenase [ubiquinone] | 1.2.5.1 | 0.752 | |
| 2q5o | TPW | Indole-3-pyruvate decarboxylase | 4.1.1.74 | 0.747 | |
| 1umc | TDP | 2-oxoisovalerate dehydrogenase subunit alpha | 1.2.4.4 | 0.731 | |
| 1umc | TDP | 2-oxoisovalerate dehydrogenase subunit beta | 1.2.4.4 | 0.731 | |
| 3iaf | TPP | Benzaldehyde lyase | / | 0.731 | |
| 5esd | TDP | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.730 | |
| 5eso | TDP | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.723 | |
| 2ihv | TPP | N(2)-(2-carboxyethyl)arginine synthase | / | 0.721 | |
| 2ji9 | TPW | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.718 | |
| 1rp7 | TZD | Pyruvate dehydrogenase E1 component | 1.2.4.1 | 0.715 | |
| 1mcz | TDP | Benzoylformate decarboxylase | 4.1.1.7 | 0.712 | |
| 1ozh | HE3 | Acetolactate synthase, catabolic | 2.2.1.6 | 0.711 | |
| 1y9d | TPP | Pyruvate oxidase | 1.2.3.3 | 0.707 | |
| 5ahk | TPP | Acetolactate synthase II, large subunit | / | 0.706 | |
| 2iea | TDP | Pyruvate dehydrogenase E1 component | 1.2.4.1 | 0.705 | |
| 4jub | TPP | Benzoylformate decarboxylase | 4.1.1.7 | 0.705 | |
| 2vk8 | TPP | Pyruvate decarboxylase isozyme 1 | / | 0.702 | |
| 1ovm | TPP | Indole-3-pyruvate decarboxylase | 4.1.1.74 | 0.700 | |
| 3exf | TPP | Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial | 1.2.4.1 | 0.696 | |
| 3exf | TPP | Pyruvate dehydrogenase E1 component subunit beta, mitochondrial | 1.2.4.1 | 0.696 | |
| 2vk4 | TPP | Pyruvate decarboxylase | 4.1.1.1 | 0.695 | |
| 1upc | TPP | N(2)-(2-carboxyethyl)arginine synthase | / | 0.694 | |
| 5ej9 | TPP | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.694 | |
| 5exd | TPP | Oxalate oxidoreductase subunit alpha | / | 0.692 | |
| 5exd | TPP | Oxalate oxidoreductase subunit beta | / | 0.692 | |
| 5ej6 | TD6 | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.686 | |
| 4k9o | TPP | Benzoylformate decarboxylase | 4.1.1.7 | 0.685 | |
| 1pox | TPP | Pyruvate oxidase | 1.2.3.3 | 0.684 | |
| 1kek | HTL | Pyruvate synthase | / | 0.682 | |
| 1pyd | TDP | Pyruvate decarboxylase isozyme 1 | / | 0.681 | |
| 2x7j | TPP | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.681 | |
| 4cok | TPP | Pyruvate decarboxylase | / | 0.681 | |
| 2jla | TPP | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.679 | |
| 2jlc | TPP | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.677 | |
| 4k9n | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.676 | |
| 5ej8 | TD6 | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.674 | |
| 1v11 | TDP | 2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial | 1.2.4.4 | 0.672 | |
| 3lq2 | TDP | Pyruvate dehydrogenase E1 component | 1.2.4.1 | 0.670 | |
| 4jd5 | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.669 | |
| 4ju9 | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.669 | |
| 2fwn | TDP | Benzoylformate decarboxylase | 4.1.1.7 | 0.668 | |
| 3oe1 | TDL | Pyruvate decarboxylase | 4.1.1.1 | 0.667 | |
| 2w93 | TPP | Pyruvate decarboxylase isozyme 1 | / | 0.666 | |
| 3ahj | TPP | Probable phosphoketolase | / | 0.666 | |
| 3dva | TPW | Pyruvate dehydrogenase E1 component subunit alpha | 1.2.4.1 | 0.666 | |
| 3dva | TPW | Pyruvate dehydrogenase E1 component subunit beta | 1.2.4.1 | 0.666 | |
| 4gm0 | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.665 | |
| 4gm4 | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.665 | |
| 4juf | TPP | Benzoylformate decarboxylase | 4.1.1.7 | 0.665 | |
| 4mpr | TPP | Benzoylformate decarboxylase | 4.1.1.7 | 0.665 | |
| 4mq5 | TPP | Benzoylformate decarboxylase | 4.1.1.7 | 0.663 | |
| 3dv0 | TPW | Pyruvate dehydrogenase E1 component subunit alpha | 1.2.4.1 | 0.660 | |
| 3dv0 | TPW | Pyruvate dehydrogenase E1 component subunit beta | 1.2.4.1 | 0.660 | |
| 2qta | TDP | Pyruvate dehydrogenase E1 component | 1.2.4.1 | 0.659 | |
| 1upb | TPP | N(2)-(2-carboxyethyl)arginine synthase | / | 0.658 | |
| 2iht | TPP | N(2)-(2-carboxyethyl)arginine synthase | / | 0.657 | |
| 3zhq | TPP | Multifunctional 2-oxoglutarate metabolism enzyme | 1.2.4.2 | 0.657 | |
| 4mpp | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.657 | |
| 1l8a | TDP | Pyruvate dehydrogenase E1 component | 1.2.4.1 | 0.656 | |
| 2c31 | TZD | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.654 | |
| 3zhs | TD6 | Multifunctional 2-oxoglutarate metabolism enzyme | 1.2.4.2 | 0.654 | |
| 5dgt | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.654 | |
| 1po7 | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.653 | |
| 3fzn | D7K | Benzoylformate decarboxylase | 4.1.1.7 | 0.653 | |
| 4juc | TPP | Benzoylformate decarboxylase | 4.1.1.7 | 0.650 |