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 |
|---|---|---|---|
| 4ihj | GTP | Tubulin alpha-1B chain |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4ihj | GTP | Tubulin alpha-1B chain | / | 1.448 | |
| 4tuy | GTP | Tubulin alpha-1B chain | / | 1.346 | |
| 5jqg | GTP | Tubulin alpha-1B chain | / | 1.346 | |
| 4tv9 | GTP | Tubulin alpha-1B chain | / | 1.337 | |
| 5la6 | GTP | Tubulin alpha-1B chain | / | 1.333 | |
| 4o4i | GTP | Tubulin alpha-1B chain | / | 1.329 | |
| 4iij | GTP | Tubulin alpha-1B chain | / | 1.327 | |
| 4wbn | GTP | Tubulin alpha-1B chain | / | 1.318 | |
| 4zol | GTP | Tubulin alpha-1B chain | / | 1.300 | |
| 4o4l | GTP | Tubulin alpha-1B chain | / | 1.298 | |
| 5itz | GTP | Tubulin alpha-1B chain | / | 1.247 | |
| 3ryh | GTP | Tubulin alpha chain | / | 1.242 | |
| 4yj2 | GTP | Tubulin alpha-1B chain | / | 1.182 | |
| 3cb2 | GDP | Tubulin gamma-1 chain | / | 0.937 | |
| 4ffb | GTP | Tubulin alpha-1 chain | / | 0.879 | |
| 3zid | GDP | Tubulin-like protein CetZ | / | 0.867 | |
| 5la6 | GDP | Tubulin beta-2B chain | / | 0.841 | |
| 4u3j | GTP | Tubulin beta chain | / | 0.779 | |
| 1z5v | GSP | Tubulin gamma-1 chain | / | 0.778 | |
| 4b45 | GSP | Tubulin-like protein CetZ2 | / | 0.756 | |
| 1z5w | GTP | Tubulin gamma-1 chain | / | 0.734 | |
| 1ytm | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.727 | |
| 2r6r | GDP | Cell division protein FtsZ | / | 0.714 | |
| 1w5a | GTP | Cell division protein FtsZ 1 | / | 0.711 | |
| 4qm6 | GTP | Metallophosphoesterase | / | 0.711 | |
| 2olq | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.710 | |
| 2ywv | ADP | Phosphoribosylaminoimidazole-succinocarboxamide synthase | / | 0.700 | |
| 4xjx | ATP | Type I restriction enzyme EcoR124II R protein | 3.1.21.3 | 0.699 | |
| 3m0e | ATP | Transcriptional regulator (NtrC family) | / | 0.698 | |
| 4oi4 | ATP | mRNA cleavage and polyadenylation factor CLP1 | / | 0.696 | |
| 1aq2 | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.694 | |
| 3ftq | GNP | Septin-2 | / | 0.694 | |
| 2olr | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.690 | |
| 3vhx | GTP | ADP-ribosylation factor 6 | / | 0.690 | |
| 5i4n | ATP | Tyrosine-protein kinase JAK2 | / | 0.687 | |
| 2py7 | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.686 | |
| 3mhy | ATP | Nitrogen regulatory protein P-II 1 | / | 0.685 | |
| 1fmw | ATP | Myosin-2 heavy chain | / | 0.683 | |
| 2xka | GSP | Cell division protein FtsZ | / | 0.681 | |
| 4nyj | GNP | GTPase HRas | / | 0.677 | |
| 3zfd | ANP | Chromosome-associated kinesin KIF4 | / | 0.675 | |
| 5dac | AGS | Uncharacterized protein | / | 0.674 | |
| 1wdt | GTP | Elongation factor G (EF-G-2) | / | 0.672 | |
| 3ffk | ATP | Actin, alpha skeletal muscle | / | 0.672 | |
| 3exh | TPP | Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial | 1.2.4.1 | 0.668 | |
| 3exh | TPP | Pyruvate dehydrogenase E1 component subunit beta, mitochondrial | 1.2.4.1 | 0.668 | |
| 4k41 | ATP | Actin, alpha skeletal muscle | / | 0.668 | |
| 4pki | ATP | Actin, alpha skeletal muscle | / | 0.668 | |
| 4xj3 | GTP | Cyclic GMP-AMP synthase | / | 0.668 | |
| 3v2u | ATP | Protein GAL3 | / | 0.667 | |
| 4pkg | ATP | Actin, alpha skeletal muscle | / | 0.667 | |
| 1ayl | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.666 | |
| 1c0f | ATP | Major actin | / | 0.666 | |
| 4qxa | GTP | Ras-related protein Rab-9A | / | 0.665 | |
| 2xtz | GSP | Guanine nucleotide-binding protein alpha-1 subunit | / | 0.664 | |
| 3dkv | AP5 | Adenylate kinase | / | 0.664 | |
| 4fvq | ATP | Tyrosine-protein kinase JAK2 | / | 0.664 | |
| 2rgx | AP5 | Adenylate kinase | / | 0.663 | |
| 1dej | ATP | Major actin | / | 0.662 | |
| 2q36 | ATP | Actin, alpha skeletal muscle | / | 0.662 | |
| 4b1v | ATP | Actin, alpha skeletal muscle | / | 0.660 | |
| 1gia | GSP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.659 | |
| 4n49 | MGT | Cap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1 | 2.1.1.57 | 0.659 | |
| 4rnh | C2E | Motility regulator | / | 0.659 | |
| 4tlb | AGS | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.659 | |
| 4tlc | AGS | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.658 | |
| 2oan | ATP | Actin, cytoplasmic 1 | / | 0.657 | |
| 3mn9 | ATP | Actin-5C | / | 0.656 | |
| 4tl7 | ATP | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.656 | |
| 4tld | AGS | Circadian clock protein kinase KaiC | 2.7.11.1 | 0.656 | |
| 4mkf | AP5 | Adenylate kinase | / | 0.655 | |
| 1os1 | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.653 | |
| 2xjc | 5GP | Cytosolic purine 5'-nucleotidase | 3.1.3.5 | 0.653 | |
| 4fyx | UTP | Aspartate carbamoyltransferase regulatory chain | / | 0.653 | |
| 2j5x | GSP | ADP-ribosylation factor 6 | / | 0.652 | |
| 3a5o | ATP | Major actin | / | 0.652 | |
| 2cl6 | CAG | GTPase HRas | / | 0.651 | |
| 2q66 | ATP | Poly(A) polymerase | 2.7.7.19 | 0.651 |