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 |
|---|---|---|---|
| 5exd | TPP | Oxalate oxidoreductase subunit alpha |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 5exd | TPP | Oxalate oxidoreductase subunit alpha | / | 1.131 | |
| 5exd | TPP | Oxalate oxidoreductase subunit beta | / | 1.131 | |
| 5c4i | TPP | Oxalate oxidoreductase subunit alpha | / | 1.041 | |
| 5c4i | TPP | Oxalate oxidoreductase subunit beta | / | 1.041 | |
| 4ju8 | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.796 | |
| 2uza | HTL | Pyruvate synthase | / | 0.766 | |
| 1kek | HTL | Pyruvate synthase | / | 0.765 | |
| 3d7k | D7K | Benzaldehyde lyase | / | 0.759 | |
| 4ju9 | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.753 | |
| 5dgt | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.735 | |
| 2c3p | 1TP | Pyruvate synthase | / | 0.728 | |
| 3iaf | TPP | Benzaldehyde lyase | / | 0.724 | |
| 2c3y | HTL | Pyruvate synthase | / | 0.722 | |
| 3fzn | D7K | Benzoylformate decarboxylase | 4.1.1.7 | 0.722 | |
| 1po7 | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.721 | |
| 2uz1 | TPP | Benzaldehyde lyase | / | 0.721 | |
| 1y9d | TPP | Pyruvate oxidase | 1.2.3.3 | 0.718 | |
| 2q5o | TPW | Indole-3-pyruvate decarboxylase | 4.1.1.74 | 0.716 | |
| 3iae | D7K | Benzaldehyde lyase | / | 0.715 | |
| 1pox | TPP | Pyruvate oxidase | 1.2.3.3 | 0.709 | |
| 4qel | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.709 | |
| 1ni4 | TPP | Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial | 1.2.4.1 | 0.705 | |
| 1ni4 | TPP | Pyruvate dehydrogenase E1 component subunit beta, mitochondrial | 1.2.4.1 | 0.705 | |
| 2vk8 | TPP | Pyruvate decarboxylase isozyme 1 | / | 0.705 | |
| 2ez9 | TDK | Pyruvate oxidase | 1.2.3.3 | 0.703 | |
| 4zp1 | TPP | Pyruvate decarboxylase | 4.1.1.1 | 0.701 | |
| 2v3w | TPP | Benzoylformate decarboxylase | 4.1.1.7 | 0.700 | |
| 4mq5 | TPP | Benzoylformate decarboxylase | 4.1.1.7 | 0.700 | |
| 1mcz | TDP | Benzoylformate decarboxylase | 4.1.1.7 | 0.698 | |
| 3ahj | TPP | Probable phosphoketolase | / | 0.697 | |
| 1v11 | TDP | 2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial | 1.2.4.4 | 0.692 | |
| 2ag1 | TPP | Benzaldehyde lyase | / | 0.692 | |
| 4jd5 | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.692 | |
| 1ozh | HE3 | Acetolactate synthase, catabolic | 2.2.1.6 | 0.690 | |
| 3fsj | D7K | Benzoylformate decarboxylase | 4.1.1.7 | 0.687 | |
| 2q5q | TPW | Indole-3-pyruvate decarboxylase | 4.1.1.74 | 0.685 | |
| 4juf | TPP | Benzoylformate decarboxylase | 4.1.1.7 | 0.681 | |
| 4k9n | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.680 | |
| 3hwx | TPP | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.678 | |
| 2w93 | TPP | Pyruvate decarboxylase isozyme 1 | / | 0.677 | |
| 1th8 | ADP | Anti-sigma F factor | / | 0.676 | |
| 4cok | TPP | Pyruvate decarboxylase | / | 0.673 | |
| 5ej9 | TPP | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.673 | |
| 1upc | TPP | N(2)-(2-carboxyethyl)arginine synthase | / | 0.671 | |
| 5ahk | TPP | Acetolactate synthase II, large subunit | / | 0.671 | |
| 2fwn | TDP | Benzoylformate decarboxylase | 4.1.1.7 | 0.670 | |
| 2vk4 | TPP | Pyruvate decarboxylase | 4.1.1.1 | 0.670 | |
| 4gm0 | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.669 | |
| 1ols | TDP | 2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial | 1.2.4.4 | 0.668 | |
| 1upa | TPP | N(2)-(2-carboxyethyl)arginine synthase | / | 0.668 | |
| 1bfd | TPP | Benzoylformate decarboxylase | 4.1.1.7 | 0.667 | |
| 1umc | TDP | 2-oxoisovalerate dehydrogenase subunit alpha | 1.2.4.4 | 0.665 | |
| 1umc | TDP | 2-oxoisovalerate dehydrogenase subunit beta | 1.2.4.4 | 0.665 | |
| 4gt8 | ADP | Sensor protein VraS | 2.7.13.3 | 0.665 | |
| 3exh | TPP | Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial | 1.2.4.1 | 0.663 | |
| 3exh | TPP | Pyruvate dehydrogenase E1 component subunit beta, mitochondrial | 1.2.4.1 | 0.663 | |
| 3zhs | TD6 | Multifunctional 2-oxoglutarate metabolism enzyme | 1.2.4.2 | 0.663 | |
| 1qpb | TPP | Pyruvate decarboxylase isozyme 1 | / | 0.660 | |
| 4gm1 | TZD | Benzoylformate decarboxylase | 4.1.1.7 | 0.660 | |
| 2iea | TDP | Pyruvate dehydrogenase E1 component | 1.2.4.1 | 0.659 | |
| 2pan | TDP | Glyoxylate carboligase | 4.1.1.47 | 0.659 | |
| 4zwg | DTP | Deoxynucleoside triphosphate triphosphohydrolase SAMHD1 | 3.1.5 | 0.658 | |
| 5ej7 | TD6 | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.657 | |
| 1pow | TPP | Pyruvate oxidase | 1.2.3.3 | 0.655 | |
| 2ihu | TP9 | N(2)-(2-carboxyethyl)arginine synthase | / | 0.655 | |
| 1pyd | TDP | Pyruvate decarboxylase isozyme 1 | / | 0.651 | |
| 2jlc | TPP | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.651 |