sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
Cavities are compared using Shaper.
For more information, please see the following publication:
Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 2x7d | EGB | Kinesin-like protein KIF11 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 2x7d | EGB | Kinesin-like protein KIF11 | / | 1.000 | |
| 1q0b | NAT | Kinesin-like protein KIF11 | / | 0.631 | |
| 2x7e | X7E | Kinesin-like protein KIF11 | / | 0.630 | |
| 2ieh | MOY | Kinesin-like protein KIF11 | / | 0.621 | |
| 2x7c | KZ9 | Kinesin-like protein KIF11 | / | 0.618 | |
| 4bbg | V02 | Kinesin-like protein KIF11 | / | 0.616 | |
| 3ken | ZZD | Kinesin-like protein KIF11 | / | 0.601 | |
| 2q2z | MKK | Kinesin-like protein KIF11 | / | 0.595 | |
| 3k3b | L31 | Kinesin-like protein KIF11 | / | 0.593 | |
| 2fme | 3QC | Kinesin-like protein KIF11 | / | 0.585 | |
| 2wog | ZZD | Kinesin-like protein KIF11 | / | 0.582 | |
| 2x2r | X2O | Kinesin-like protein KIF11 | / | 0.573 | |
| 2xae | 2XA | Kinesin-like protein KIF11 | / | 0.564 | |
| 4a51 | DQ8 | Kinesin-like protein KIF11 | / | 0.554 | |
| 2gm1 | 2AZ | Kinesin-like protein KIF11 | / | 0.553 | |
| 1w2x | RCP | Acetyl-CoA carboxylase | / | 0.501 | |
| 4a5y | G7X | Kinesin-like protein KIF11 | / | 0.489 | |
| 4z34 | ON7 | Lysophosphatidic acid receptor 1 | / | 0.478 | |
| 2r64 | 740 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.476 | |
| 2c3k | ABO | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.466 | |
| 3we4 | 5FI | Ribosomal protein S6 kinase beta-1 | 2.7.11.1 | 0.464 | |
| 2b00 | GCH | Phospholipase A2, major isoenzyme | 3.1.1.4 | 0.463 | |
| 1hk5 | T44 | Serum albumin | / | 0.462 | |
| 4as7 | 6LX | Kinesin-like protein KIF11 | / | 0.462 | |
| 1bvr | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.461 | |
| 4ez3 | 0S0 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.460 | |
| 2e9o | A58 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.458 | |
| 4fkp | LS5 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.457 | |
| 2c5y | MTW | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.456 | |
| 2xck | MH4 | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.456 | |
| 4i1n | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.456 | |
| 5ack | ATP | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.456 | |
| 2psv | MUV | Protease | / | 0.454 | |
| 2zce | PYL | Pyrrolysine--tRNA ligase | / | 0.454 | |
| 3h0s | B38 | Acetyl-CoA carboxylase | / | 0.453 | |
| 4fkj | 11K | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.453 | |
| 2chz | 093 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.452 | |
| 2wtd | ZZK | Serine/threonine-protein kinase Chk2 | 2.7.11.1 | 0.452 | |
| 3say | OFT | Glycogen synthase kinase-3 beta | 2.7.11.26 | 0.452 | |
| 1e90 | MYC | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.451 | |
| 2wmq | ZYQ | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.451 | |
| 4fki | 09K | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.451 | |
| 1vyz | N5B | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.450 | |
| 3a99 | ANP | Serine/threonine-protein kinase pim-1 | 2.7.11.1 | 0.450 | |
| 4lyn | 1YG | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.449 | |
| 2phk | ATP | Phosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform | 2.7.11.19 | 0.448 | |
| 3aid | ARQ | Gag-Pol polyprotein | 3.4.23.16 | 0.448 | |
| 3sa8 | K83 | Protease | / | 0.448 | |
| 3sqq | 99Z | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.448 | |
| 4eor | 4SP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.448 | |
| 1h1r | 6CP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.447 | |
| 1kvt | UPG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.447 | |
| 2c31 | TZD | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.447 | |
| 3o9a | K14 | Pol polyprotein | / | 0.447 | |
| 5fwn | NAP | Putative dehydrogenase | / | 0.447 | |
| 1ckp | PVB | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.446 | |
| 2hxl | 422 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.446 | |
| 2yeg | XQG | Heat shock protein HSP 90-alpha | / | 0.446 | |
| 3pwr | ROC | Gag-Pol polyprotein | 3.4.23.16 | 0.446 | |
| 4ftt | 6HK | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.446 | |
| 2azy | CHD | Phospholipase A2, major isoenzyme | 3.1.1.4 | 0.445 | |
| 2gr3 | FAD | Ferredoxin reductase | / | 0.445 | |
| 3o9d | K19 | Pol polyprotein | / | 0.445 | |
| 3qxo | X65 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.445 | |
| 4enh | FVX | Cholesterol 24-hydroxylase | / | 0.445 | |
| 1h1w | ATP | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.444 | |
| 2pe2 | 464 | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.444 | |
| 3gi4 | K60 | Gag-Pol polyprotein | / | 0.444 | |
| 3qu0 | X40 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.444 | |
| 4feq | 0T8 | Tyrosine-protein kinase receptor TYRO3 | 2.7.10.1 | 0.444 | |
| 1os1 | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.443 | |
| 2v4l | ABJ | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.443 | |
| 5il2 | SAH | N6-adenosine-methyltransferase 70 kDa subunit | / | 0.443 | |
| 1ke9 | LS5 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.442 | |
| 2a1m | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.442 | |
| 2c3l | IDZ | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.442 | |
| 2itp | AEE | Epidermal growth factor receptor | 2.7.10.1 | 0.442 | |
| 2zaz | GK1 | Mitogen-activated protein kinase 14 | / | 0.442 | |
| 3unk | 0BY | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.442 | |
| 4asg | 814 | ATP-dependent molecular chaperone HSP82 | / | 0.442 | |
| 4c9p | CAM | Cytochrome P450 | / | 0.442 | |
| 1unl | RRC | Cyclin-dependent-like kinase 5 | 2.7.11.1 | 0.441 | |
| 2bpz | 3IN | Gag-Pol polyprotein | 3.4.23.16 | 0.441 | |
| 2yex | YEX | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.441 | |
| 3ddq | RRC | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.441 | |
| 3fri | SAH | 16S rRNA methylase | / | 0.441 | |
| 3lfq | A28 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.441 | |
| 3o9h | K2E | Gag-Pol polyprotein | / | 0.441 | |
| 3rpr | 25Z | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.441 | |
| 4q1x | 017 | Gag-Pol polyprotein | 3.4.23.16 | 0.441 | |
| 1h48 | CDI | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase | 4.6.1.12 | 0.440 | |
| 1ke7 | LS3 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.440 | |
| 1pdh | FAS | p-hydroxybenzoate hydroxylase | / | 0.440 | |
| 2iw9 | 4SP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.440 | |
| 2qd4 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.440 | |
| 3cd5 | 7HI | 3-hydroxy-3-methylglutaryl-coenzyme A reductase | 1.1.1.34 | 0.440 | |
| 3r8l | Z30 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.440 |