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 Sites 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
Binding Sites are considered as similar when the similarity value is greater than 0.44
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 3k3b | L31 | Kinesin-like protein KIF11 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3k3b | L31 | Kinesin-like protein KIF11 | / | 1.000 | |
| 1q0b | NAT | Kinesin-like protein KIF11 | / | 0.637 | |
| 3k5e | K5E | Kinesin-like protein KIF11 | / | 0.622 | |
| 1x88 | NAT | Kinesin-like protein KIF11 | / | 0.616 | |
| 2x7d | EGB | Kinesin-like protein KIF11 | / | 0.615 | |
| 2ieh | MOY | Kinesin-like protein KIF11 | / | 0.614 | |
| 2q2z | MKK | Kinesin-like protein KIF11 | / | 0.613 | |
| 4bbg | V02 | Kinesin-like protein KIF11 | / | 0.603 | |
| 2x7e | X7E | Kinesin-like protein KIF11 | / | 0.590 | |
| 2wog | ZZD | Kinesin-like protein KIF11 | / | 0.582 | |
| 3ken | ZZD | Kinesin-like protein KIF11 | / | 0.581 | |
| 2xae | 2XA | Kinesin-like protein KIF11 | / | 0.568 | |
| 2x2r | X2O | Kinesin-like protein KIF11 | / | 0.567 | |
| 2g1q | N9H | Kinesin-like protein KIF11 | / | 0.566 | |
| 2x7c | KZ9 | Kinesin-like protein KIF11 | / | 0.558 | |
| 2fme | 3QC | Kinesin-like protein KIF11 | / | 0.547 | |
| 4a51 | DQ8 | Kinesin-like protein KIF11 | / | 0.544 | |
| 2gm1 | 2AZ | Kinesin-like protein KIF11 | / | 0.509 | |
| 4a5y | G7X | Kinesin-like protein KIF11 | / | 0.509 | |
| 4as7 | 6LX | Kinesin-like protein KIF11 | / | 0.508 | |
| 4z34 | ON7 | Lysophosphatidic acid receptor 1 | / | 0.495 | |
| 3a99 | ANP | Serine/threonine-protein kinase pim-1 | 2.7.11.1 | 0.483 | |
| 4ft7 | H3K | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.482 | |
| 2itp | AEE | Epidermal growth factor receptor | 2.7.10.1 | 0.480 | |
| 4erw | STU | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.480 | |
| 1w2x | RCP | Acetyl-CoA carboxylase | / | 0.479 | |
| 1h1p | CMG | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.477 | |
| 4ftr | 5HK | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.477 | |
| 2xck | MH4 | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.475 | |
| 3bgq | VX2 | Serine/threonine-protein kinase pim-1 | 2.7.11.1 | 0.471 | |
| 5ack | ATP | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.471 | |
| 1nvs | UCM | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.469 | |
| 2nr4 | FMN | Conserved protein | / | 0.468 | |
| 2ydi | YDI | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.468 | |
| 3orz | BI4 | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.468 | |
| 3unk | 0BY | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.468 | |
| 4bdh | WVI | Serine/threonine-protein kinase Chk2 | 2.7.11.1 | 0.468 | |
| 4ftt | 6HK | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.468 | |
| 3e7m | AT2 | Nitric oxide synthase, inducible | 1.14.13.39 | 0.467 | |
| 4yqf | GDP | Septin-9 | / | 0.467 | |
| 3qu0 | X40 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.466 | |
| 2wpa | 889 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.465 | |
| 1nvq | UCN | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.464 | |
| 4rqk | ATP | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.464 | |
| 1ckp | PVB | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.463 | |
| 1oir | HDY | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.463 | |
| 2r7b | 253 | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.463 | |
| 4g95 | OAG | Dihydrofolate reductase | 1.5.1.3 | 0.462 | |
| 1r35 | I58 | Nitric oxide synthase, inducible | 1.14.13.39 | 0.461 | |
| 2uxo | TAC | HTH-type transcriptional regulator TtgR | / | 0.461 | |
| 3eai | 328 | Nitric oxide synthase, inducible | 1.14.13.39 | 0.461 | |
| 4fsw | HK6 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.461 | |
| 1h1s | 4SP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.460 | |
| 1iep | STI | Tyrosine-protein kinase ABL1 | 2.7.10.2 | 0.460 | |
| 4k18 | 1OB | Serine/threonine-protein kinase pim-1 | 2.7.11.1 | 0.460 | |
| 1qnf | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.459 | |
| 1rx4 | DDF | Dihydrofolate reductase | 1.5.1.3 | 0.459 | |
| 1vyw | 292 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.459 | |
| 2c3l | IDZ | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.459 | |
| 3fls | FLS | Mitogen-activated protein kinase 14 | / | 0.459 | |
| 4zvm | DM2 | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.459 | |
| 1uu9 | BI3 | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.458 | |
| 2ym6 | YM6 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.458 | |
| 3ml8 | ML8 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.458 | |
| 3r73 | X87 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.458 | |
| 2e9o | A58 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.457 | |
| 2wtc | VGM | Serine/threonine-protein kinase Chk2 | 2.7.11.1 | 0.457 | |
| 4ek6 | 10K | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.457 | |
| 4fad | 0TB | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.457 | |
| 4hyh | 1AM | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.457 | |
| 2brh | DFW | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.456 | |
| 2wmq | ZYQ | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.456 | |
| 2x1n | X1N | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.456 | |
| 3qql | X03 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.456 | |
| 1e8w | QUE | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.455 | |
| 1uvr | BI8 | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.455 | |
| 2onm | ADP | Aldehyde dehydrogenase, mitochondrial | 1.2.1.3 | 0.455 | |
| 4bcp | T3C | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.455 | |
| 4fsy | HK7 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.455 | |
| 4ftu | 7HK | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.455 | |
| 4jsj | QJ7 | Nitric oxide synthase, brain | 1.14.13.39 | 0.455 | |
| 1fvt | 106 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.454 | |
| 2hxq | 373 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.454 | |
| 4fsn | A58 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.454 | |
| 1f20 | FAD | Nitric oxide synthase, brain | 1.14.13.39 | 0.453 | |
| 1oi9 | N20 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.453 | |
| 2qkr | IXM | Cdc2-like CDK2/CDC28 like protein kinase | / | 0.453 | |
| 3bht | MFR | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.453 | |
| 3dqr | JI2 | Nitric oxide synthase, brain | 1.14.13.39 | 0.453 | |
| 4ddr | MMV | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 4eor | 4SP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.453 | |
| 2phk | ATP | Phosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform | 2.7.11.19 | 0.452 | |
| 3n65 | XFJ | Nitric oxide synthase, brain | 1.14.13.39 | 0.452 | |
| 3o0g | 3O0 | Cyclin-dependent-like kinase 5 | 2.7.11.1 | 0.452 | |
| 3qcs | 3Q1 | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.452 | |
| 3rk7 | 08Z | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.452 | |
| 4wbo | ANW | Rhodopsin kinase | / | 0.452 | |
| 2hog | 710 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.451 | |
| 2hxl | 422 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.451 | |
| 2uzl | C94 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.451 | |
| 2zaz | GK1 | Mitogen-activated protein kinase 14 | / | 0.451 | |
| 3d5w | ADP | Serine/threonine-protein kinase PLK | / | 0.451 | |
| 3r8p | Z46 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.451 | |
| 3cd5 | 7HI | 3-hydroxy-3-methylglutaryl-coenzyme A reductase | 1.1.1.34 | 0.450 | |
| 1phk | ATP | Phosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform | 2.7.11.19 | 0.449 | |
| 2brg | DFY | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.449 | |
| 3e7g | AT2 | Nitric oxide synthase, inducible | 1.14.13.39 | 0.449 | |
| 4o8a | FAD | Bifunctional protein PutA | 1.2.1.88 | 0.449 | |
| 4u9a | STU | Interleukin-1 receptor-associated kinase 4 | 2.7.11.1 | 0.449 | |
| 4z35 | ON9 | Lysophosphatidic acid receptor 1 | / | 0.449 | |
| 1p6j | DP9 | Nitric oxide synthase, brain | 1.14.13.39 | 0.448 | |
| 1tj1 | FAD | Bifunctional protein PutA | 1.5.5.2 | 0.448 | |
| 3qtq | X35 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.448 | |
| 3rni | 21Z | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.448 | |
| 3ujl | A8S | Abscisic acid receptor PYL2 | / | 0.448 | |
| 3zt0 | ZT0 | Integrase | / | 0.448 | |
| 4jlt | 8PR | Cytochrome P450 2B4 | 1.14.14.1 | 0.448 | |
| 2cgw | 3C3 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.447 | |
| 3a4p | DFQ | Hepatocyte growth factor receptor | 2.7.10.1 | 0.447 | |
| 4fmq | ANP | Mitogen-activated protein kinase 1 | 2.7.11.24 | 0.447 | |
| 4hw3 | 19G | Induced myeloid leukemia cell differentiation protein Mcl-1 | / | 0.447 | |
| 4wda | 2AM | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.447 | |
| 1sui | SAH | Caffeoyl-CoA O-methyltransferase | 2.1.1.104 | 0.446 | |
| 1svl | ADP | Large T antigen | 3.6.4 | 0.446 | |
| 2a7r | 5GP | GMP reductase 2 | / | 0.446 | |
| 4ft5 | H2K | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.446 | |
| 1lcb | TMP | Thymidylate synthase | / | 0.445 | |
| 2tsr | D16 | Thymidylate synthase | 2.1.1.45 | 0.445 | |
| 2ym4 | 4YM | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.445 | |
| 3lin | E13 | Protease | / | 0.445 | |
| 3ns2 | PYV | Abscisic acid receptor PYL2 | / | 0.445 | |
| 4fta | H5K | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.445 | |
| 4lwb | QJ8 | Nitric oxide synthase oxygenase | 1.14.13.165 | 0.445 | |
| 1kr2 | TAD | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 1 | 2.7.7.1 | 0.444 | |
| 1oit | HDT | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.444 | |
| 1tj0 | FAD | Bifunctional protein PutA | 1.5.5.2 | 0.444 | |
| 2chz | 093 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.444 | |
| 2iw8 | 4SP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.444 | |
| 3nlv | 3XA | Nitric oxide synthase, brain | 1.14.13.39 | 0.444 | |
| 3nuu | JOZ | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.444 | |
| 3qj0 | QI3 | Botulinum neurotoxin type A | 3.4.24.69 | 0.444 | |
| 3rjc | 06Z | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.444 | |
| 3s0o | 50Z | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.444 | |
| 4ftc | H6K | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.444 | |
| 4lg5 | A1O | Abscisic acid receptor PYL2 | / | 0.444 | |
| 4u97 | STU | Interleukin-1 receptor-associated kinase 4 | 2.7.11.1 | 0.444 | |
| 1e1x | NW1 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.443 | |
| 1pkg | ADP | Mast/stem cell growth factor receptor Kit | 2.7.10.1 | 0.443 | |
| 2azy | CHD | Phospholipase A2, major isoenzyme | 3.1.1.4 | 0.443 | |
| 2wmu | ZYU | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.443 | |
| 3ox1 | 695 | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.443 | |
| 4cdm | FAD | Deoxyribodipyrimidine photolyase | / | 0.443 | |
| 5ckw | ANP | Uncharacterized protein | / | 0.443 | |
| 1uu7 | BI2 | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.442 | |
| 2cgu | 3A3 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.442 | |
| 2wtd | ZZK | Serine/threonine-protein kinase Chk2 | 2.7.11.1 | 0.442 | |
| 3rpo | 24Z | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.442 | |
| 3tiz | 3TI | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.442 | |
| 4ftq | 4HK | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.442 | |
| 4m37 | SAH | Protein arginine N-methyltransferase 7 | 2.1.1 | 0.442 | |
| 4ww9 | ADP | EKC/KEOPS complex subunit BUD32 | 3.6 | 0.442 | |
| 1rek | B8L | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.441 | |
| 1tj2 | FAD | Bifunctional protein PutA | 1.5.5.2 | 0.441 | |
| 2hy0 | 306 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.441 | |
| 3b3o | JI3 | Nitric oxide synthase, brain | 1.14.13.39 | 0.441 | |
| 3e6o | A55 | Nitric oxide synthase, inducible | 1.14.13.39 | 0.441 | |
| 3nj0 | PYV | Abscisic acid receptor PYL2 | / | 0.441 | |
| 3s00 | Z60 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.441 | |
| 3s4q | NK0 | Mitogen-activated protein kinase 14 | / | 0.441 | |
| 4c34 | STU | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.441 | |
| 4eom | ATP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.441 | |
| 4fic | 0UL | Proto-oncogene tyrosine-protein kinase Src | 2.7.10.2 | 0.441 | |
| 4k5e | 1Q7 | Nitric oxide synthase, brain | 1.14.13.39 | 0.441 | |
| 1tll | FMN | Nitric oxide synthase, brain | 1.14.13.39 | 0.440 | |
| 1zys | 199 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.440 | |
| 2ayp | 43A | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.440 | |
| 2b9i | ADP | Mitogen-activated protein kinase FUS3 | 2.7.11.24 | 0.440 | |
| 2cgv | 3B3 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.440 | |
| 2x8i | X8I | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.440 | |
| 3ddq | RRC | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.440 | |
| 3nlr | JRS | Nitric oxide synthase, brain | 1.14.13.39 | 0.440 | |
| 3q0g | BCO | Probable enoyl-CoA hydratase echA8 | 4.2.1.17 | 0.440 | |
| 3q2j | CKI | Aminoglycoside 3'-phosphotransferase | 2.7.1.95 | 0.440 | |
| 3rqj | Y2B | Nitric oxide synthase, brain | 1.14.13.39 | 0.440 | |
| 4hbm | 0Y7 | E3 ubiquitin-protein ligase Mdm2 | 6.3.2 | 0.440 | |
| 4k5f | Q14 | Nitric oxide synthase, brain | 1.14.13.39 | 0.440 |