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 |
|---|---|---|---|
| 3kb1 | ADP | Iron-sulfur cluster carrier protein |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3kb1 | ADP | Iron-sulfur cluster carrier protein | / | 0.923 | |
| 3kji | ADP | CO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC | / | 0.729 | |
| 5aun | ADP | Iron-sulfur cluster carrier protein | / | 0.720 | |
| 4rz3 | ADP | Site-determining protein | / | 0.710 | |
| 3fkq | ATP | NtrC-like two-domain protein | / | 0.694 | |
| 3r9i | ADP | Septum site-determining protein MinD | / | 0.687 | |
| 4xvu | ATP | ATPase GET3 | / | 0.682 | |
| 3kjg | ADP | CO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC | / | 0.681 | |
| 4ohx | ADP | Protein clpf-1 | / | 0.681 | |
| 3q9l | ATP | Septum site-determining protein MinD | / | 0.679 | |
| 4i1v | ADP | Dephospho-CoA kinase | / | 0.674 | |
| 1d5c | GDP | GTPase (Rab6) | / | 0.673 | |
| 1fp6 | ADP | Nitrogenase iron protein 1 | 1.18.6.1 | 0.671 | |
| 5di3 | GNP | ADP-ribosylation factor-like protein 3 | / | 0.667 | |
| 1xtr | GNP | GTP-binding protein Rheb | / | 0.666 | |
| 2v7q | ATP | ATP synthase subunit alpha, mitochondrial | / | 0.666 | |
| 2v7q | ATP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.666 | |
| 4o2l | GTP | GTP-binding protein Rheb | / | 0.666 | |
| 4oi2 | ADP | Protein clpf-1 | / | 0.666 | |
| 1z0a | GDP | Ras-related protein Rab-2A | / | 0.663 | |
| 1z0d | GDP | Ras-related protein Rab-5C | / | 0.663 | |
| 4asu | ADP | ATP synthase subunit alpha, mitochondrial | / | 0.663 | |
| 3zvm | ADP | Bifunctional polynucleotide phosphatase/kinase | 2.7.1.78 | 0.661 | |
| 4g01 | GDP | Ras-related protein RABF2b | / | 0.661 | |
| 3fwy | ADP | Light-independent protochlorophyllide reductase iron-sulfur ATP-binding protein | / | 0.660 | |
| 4m0l | GDP | Translation initiation factor 2 subunit gamma | / | 0.660 | |
| 1w5t | ADP | ORC1-type DNA replication protein 2 | / | 0.659 | |
| 3tlx | ADP | Adenylate kinase 2 | / | 0.659 | |
| 4luc | GDP | GTPase KRas | / | 0.659 | |
| 1u0h | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.658 | |
| 3eg5 | GNP | Cell division control protein 42 homolog | / | 0.658 | |
| 4cf7 | ADP | Adenylate kinase | / | 0.657 | |
| 1xd9 | ADP | Nitrogenase iron protein 1 | 1.18.6.1 | 0.656 | |
| 4ihq | ADP | Conserved Archaeal protein | / | 0.652 | |
| 1ky2 | GNP | GTP-binding protein YPT7 | / | 0.651 | |
| 2eck | ADP | Adenylate kinase | / | 0.651 | |
| 2fe4 | GDP | Ras-related protein Rab-6B | / | 0.651 | |
| 1p9w | ANP | Type II secretion system protein E | / | 0.650 | |
| 2q3f | GNP | Ras-related GTP-binding protein D | / | 0.650 | |
| 4bzq | ADP | Bifunctional enzyme CysN/CysC | 2.7.1.25 | 0.650 | |
| 4gp6 | ADP | Metallophosphoesterase | / | 0.650 | |
| 4jjz | ADP | Formate--tetrahydrofolate ligase | / | 0.650 |