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 |
|---|---|---|---|
| 4wbn | GTP | Tubulin alpha-1B chain |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4wbn | GTP | Tubulin alpha-1B chain | / | 1.359 | |
| 4tv9 | GTP | Tubulin alpha-1B chain | / | 1.348 | |
| 4o4l | GTP | Tubulin alpha-1B chain | / | 1.342 | |
| 4tuy | GTP | Tubulin alpha-1B chain | / | 1.328 | |
| 5jqg | GTP | Tubulin alpha-1B chain | / | 1.324 | |
| 4ihj | GTP | Tubulin alpha-1B chain | / | 1.318 | |
| 5la6 | GTP | Tubulin alpha-1B chain | / | 1.316 | |
| 4o4i | GTP | Tubulin alpha-1B chain | / | 1.306 | |
| 4zol | GTP | Tubulin alpha-1B chain | / | 1.287 | |
| 4iij | GTP | Tubulin alpha-1B chain | / | 1.282 | |
| 3ryh | GTP | Tubulin alpha chain | / | 1.215 | |
| 5itz | GTP | Tubulin alpha-1B chain | / | 1.206 | |
| 4yj2 | GTP | Tubulin alpha-1B chain | / | 1.186 | |
| 3zid | GDP | Tubulin-like protein CetZ | / | 0.905 | |
| 3cb2 | GDP | Tubulin gamma-1 chain | / | 0.885 | |
| 4ffb | GTP | Tubulin alpha-1 chain | / | 0.851 | |
| 4f6r | GDP | Tubulin beta chain | / | 0.824 | |
| 5la6 | GDP | Tubulin beta-2B chain | / | 0.785 | |
| 1w5a | GTP | Cell division protein FtsZ 1 | / | 0.764 | |
| 4b45 | GSP | Tubulin-like protein CetZ2 | / | 0.751 | |
| 4u3j | GTP | Tubulin beta chain | / | 0.710 | |
| 2r6r | GDP | Cell division protein FtsZ | / | 0.705 | |
| 1z5v | GSP | Tubulin gamma-1 chain | / | 0.703 | |
| 4qm6 | GTP | Metallophosphoesterase | / | 0.700 | |
| 3m0e | ATP | Transcriptional regulator (NtrC family) | / | 0.697 | |
| 1fmw | ATP | Myosin-2 heavy chain | / | 0.691 | |
| 2xka | GSP | Cell division protein FtsZ | / | 0.685 | |
| 2xul | ATP | Nitrogen regulatory protein P-II | / | 0.685 | |
| 5ahk | TPP | Acetolactate synthase II, large subunit | / | 0.679 | |
| 1aq2 | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.678 | |
| 3dkv | AP5 | Adenylate kinase | / | 0.676 | |
| 1xje | TTP | Vitamin B12-dependent ribonucleotide reductase | / | 0.673 | |
| 4xjx | ATP | Type I restriction enzyme EcoR124II R protein | 3.1.21.3 | 0.672 | |
| 4fvr | ATP | Tyrosine-protein kinase JAK2 | / | 0.671 | |
| 5i4n | ATP | Tyrosine-protein kinase JAK2 | / | 0.671 | |
| 2ywv | ADP | Phosphoribosylaminoimidazole-succinocarboxamide synthase | / | 0.669 | |
| 1w5b | GTP | Cell division protein FtsZ 1 | / | 0.668 | |
| 2olr | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.668 | |
| 3ftq | GNP | Septin-2 | / | 0.667 | |
| 1ytm | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.666 | |
| 3vhx | GTP | ADP-ribosylation factor 6 | / | 0.664 | |
| 2rgx | AP5 | Adenylate kinase | / | 0.663 | |
| 3zfd | ANP | Chromosome-associated kinesin KIF4 | / | 0.662 | |
| 1ayl | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.660 | |
| 5dac | AGS | Uncharacterized protein | / | 0.660 | |
| 1p3j | AP5 | Adenylate kinase | / | 0.659 | |
| 2olq | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.659 | |
| 1z5w | GTP | Tubulin gamma-1 chain | / | 0.658 | |
| 3hiy | UTP | Uncharacterized protein | / | 0.658 | |
| 4qxa | GTP | Ras-related protein Rab-9A | / | 0.658 | |
| 1jsc | TPP | Acetolactate synthase catalytic subunit, mitochondrial | 2.2.1.6 | 0.657 | |
| 2bku | GTP | GTP-binding nuclear protein Ran | / | 0.656 | |
| 3vx4 | ATP | Putative ABC transporter, ATP-binding protein ComA | / | 0.654 | |
| 4mkf | AP5 | Adenylate kinase | / | 0.653 | |
| 3exh | TPP | Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial | 1.2.4.1 | 0.652 | |
| 3exh | TPP | Pyruvate dehydrogenase E1 component subunit beta, mitochondrial | 1.2.4.1 | 0.652 | |
| 4xj3 | GTP | Cyclic GMP-AMP synthase | / | 0.652 | |
| 2pz8 | APC | NH(3)-dependent NAD(+) synthetase | / | 0.651 | |
| 2ezt | TDM | Pyruvate oxidase | 1.2.3.3 | 0.650 | |
| 3oiu | GNP | GTPase HRas | / | 0.650 | |
| 4dwb | 0M7 | Farnesyl pyrophosphate synthase | / | 0.650 | |
| 4ej7 | ATP | Aminoglycoside 3'-phosphotransferase AphA1-IAB | / | 0.650 |