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 |
|---|---|---|---|
| 4o4l | GTP | Tubulin alpha-1B chain |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4o4l | GTP | Tubulin alpha-1B chain | / | 1.474 | |
| 4tv9 | GTP | Tubulin alpha-1B chain | / | 1.342 | |
| 4wbn | GTP | Tubulin alpha-1B chain | / | 1.342 | |
| 4tuy | GTP | Tubulin alpha-1B chain | / | 1.326 | |
| 5jqg | GTP | Tubulin alpha-1B chain | / | 1.303 | |
| 4ihj | GTP | Tubulin alpha-1B chain | / | 1.298 | |
| 5la6 | GTP | Tubulin alpha-1B chain | / | 1.289 | |
| 4zol | GTP | Tubulin alpha-1B chain | / | 1.285 | |
| 4iij | GTP | Tubulin alpha-1B chain | / | 1.278 | |
| 4o4i | GTP | Tubulin alpha-1B chain | / | 1.258 | |
| 5itz | GTP | Tubulin alpha-1B chain | / | 1.218 | |
| 3ryh | GTP | Tubulin alpha chain | / | 1.168 | |
| 4yj2 | GTP | Tubulin alpha-1B chain | / | 1.127 | |
| 3cb2 | GDP | Tubulin gamma-1 chain | / | 0.918 | |
| 3zid | GDP | Tubulin-like protein CetZ | / | 0.918 | |
| 4ffb | GTP | Tubulin alpha-1 chain | / | 0.888 | |
| 4f6r | GDP | Tubulin beta chain | / | 0.864 | |
| 5la6 | GDP | Tubulin beta-2B chain | / | 0.812 | |
| 4b45 | GSP | Tubulin-like protein CetZ2 | / | 0.802 | |
| 1z5w | GTP | Tubulin gamma-1 chain | / | 0.757 | |
| 2xka | GSP | Cell division protein FtsZ | / | 0.753 | |
| 4u3j | GTP | Tubulin beta chain | / | 0.752 | |
| 3m0e | ATP | Transcriptional regulator (NtrC family) | / | 0.742 | |
| 1z5v | GSP | Tubulin gamma-1 chain | / | 0.713 | |
| 4qm6 | GTP | Metallophosphoesterase | / | 0.711 | |
| 1fmw | ATP | Myosin-2 heavy chain | / | 0.700 | |
| 1ytm | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.700 | |
| 1aq2 | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.695 | |
| 4goj | GNP | ADP-ribosylation factor-like protein 3 | / | 0.693 | |
| 4o8j | ADN | RNA 3'-terminal phosphate cyclase | 6.5.1.4 | 0.691 | |
| 3mhy | ATP | Nitrogen regulatory protein P-II 1 | / | 0.690 | |
| 3orl | AGS | Serine/threonine protein kinase | / | 0.689 | |
| 2bc9 | GNP | Guanylate-binding protein 1 | / | 0.682 | |
| 4xoi | GTP | Transforming protein RhoA | / | 0.681 | |
| 3gfz | C2E | Uncharacterized protein | / | 0.678 | |
| 2olr | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.677 | |
| 4b1v | ATP | Actin, alpha skeletal muscle | / | 0.677 | |
| 1a2b | GSP | Transforming protein RhoA | / | 0.675 | |
| 2bto | GTP | Tubulin | / | 0.675 | |
| 4tlb | AGS | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.675 | |
| 1n6l | GTP | Ras-related protein Rab-5A | / | 0.674 | |
| 5i4n | ATP | Tyrosine-protein kinase JAK2 | / | 0.674 | |
| 1ky2 | GNP | GTP-binding protein YPT7 | / | 0.673 | |
| 2q0l | NAP | Thioredoxin reductase | 1.8.1.9 | 0.673 | |
| 1w5a | GTP | Cell division protein FtsZ 1 | / | 0.671 | |
| 3ftq | GNP | Septin-2 | / | 0.671 | |
| 3gg1 | C2E | Uncharacterized protein | / | 0.667 | |
| 4fvq | ATP | Tyrosine-protein kinase JAK2 | / | 0.667 | |
| 3vhx | GTP | ADP-ribosylation factor 6 | / | 0.666 | |
| 1cxz | GSP | Transforming protein RhoA | / | 0.665 | |
| 2c5l | GTP | GTPase HRas | / | 0.665 | |
| 3dyl | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.665 | |
| 1p3j | AP5 | Adenylate kinase | / | 0.664 | |
| 2pkm | ADN | Adenosine kinase | 2.7.1.20 | 0.664 | |
| 2oan | ATP | Actin, cytoplasmic 1 | / | 0.661 | |
| 3i3s | GNP | GTPase HRas | / | 0.661 | |
| 3zfd | ANP | Chromosome-associated kinesin KIF4 | / | 0.660 | |
| 3oab | DST | Geranyl diphosphate synthase large subunit | / | 0.659 | |
| 4tlc | AGS | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.658 | |
| 5a04 | NDP | Glucose-fructose oxidoreductase | / | 0.658 | |
| 5ccb | SAH | tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A | 2.1.1.220 | 0.658 | |
| 2ywv | ADP | Phosphoribosylaminoimidazole-succinocarboxamide synthase | / | 0.657 | |
| 4tl7 | ATP | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.657 | |
| 2xtz | GSP | Guanine nucleotide-binding protein alpha-1 subunit | / | 0.656 | |
| 3el2 | ATP | Actin-5C | / | 0.656 | |
| 3kz1 | GSP | Transforming protein RhoA | / | 0.656 | |
| 1t91 | GTP | Ras-related protein Rab-7a | / | 0.655 | |
| 1hp0 | AD3 | IAG-nucleoside hydrolase | / | 0.654 | |
| 2pz8 | APC | NH(3)-dependent NAD(+) synthetase | / | 0.654 | |
| 4fyx | UTP | Aspartate carbamoyltransferase regulatory chain | / | 0.654 | |
| 3bbp | GTP | Ras-related protein Rab-6A | / | 0.653 | |
| 1mez | GDP | Adenylosuccinate synthetase isozyme 1 | / | 0.651 | |
| 2py7 | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.651 | |
| 2r6r | GDP | Cell division protein FtsZ | / | 0.651 | |
| 4dvg | GSP | Rho family GTPase | / | 0.651 | |
| 1mdu | ATP | Actin, alpha skeletal muscle | / | 0.650 | |
| 3a58 | GNP | GTP-binding protein RHO1 | / | 0.650 | |
| 3cx8 | GSP | Guanine nucleotide-binding protein subunit alpha-13 | / | 0.650 | |
| 4ki0 | ANP | Maltose/maltodextrin import ATP-binding protein MalK | / | 0.650 | |
| 5c03 | AGS | Non-receptor tyrosine-protein kinase TYK2 | 2.7.10.2 | 0.650 |