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 |
|---|---|---|---|
| 1j7k | ATP | Holliday junction ATP-dependent DNA helicase RuvB |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1j7k | ATP | Holliday junction ATP-dependent DNA helicase RuvB | / | 1.000 | |
| 2i4p | DRH | Peroxisome proliferator-activated receptor gamma | / | 0.466 | |
| 4aw0 | ATP | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.464 | |
| 2e2q | ADP | ATP-dependent hexokinase | / | 0.463 | |
| 4xuh | SFI | Peroxisome proliferator-activated receptor gamma | / | 0.463 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.462 | |
| 4xx9 | ATP | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.461 | |
| 2zdt | 46C | Mitogen-activated protein kinase 10 | 2.7.11.24 | 0.460 | |
| 2i4j | DRJ | Peroxisome proliferator-activated receptor gamma | / | 0.458 | |
| 4iwo | 1H4 | Serine/threonine-protein kinase TBK1 | 2.7.11.1 | 0.458 | |
| 3fhy | ATP | Pyridoxal kinase | 2.7.1.35 | 0.457 | |
| 4r21 | STR | Cytochrome P450 family 17 polypeptide 2 | / | 0.457 | |
| 1jpa | ANP | Ephrin type-B receptor 2 | 2.7.10.1 | 0.456 | |
| 2om9 | AJA | Peroxisome proliferator-activated receptor gamma | / | 0.455 | |
| 4e5y | NDP | GDP-L-fucose synthase | 1.1.1.271 | 0.454 | |
| 2v9j | ATP | 5'-AMP-activated protein kinase subunit gamma-1 | / | 0.453 | |
| 2y8q | ADP | 5'-AMP-activated protein kinase subunit gamma-1 | / | 0.453 | |
| 3ge1 | ADP | Glycerol kinase | / | 0.453 | |
| 5adh | APR | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.453 | |
| 2qd4 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.452 | |
| 1ot7 | CHC | Bile acid receptor | / | 0.451 | |
| 2ceo | T44 | Thyroxine-binding globulin | / | 0.451 | |
| 1l8q | ADP | Chromosomal replication initiator protein DnaA | / | 0.450 | |
| 2qo9 | ANP | Ephrin type-A receptor 3 | 2.7.10.1 | 0.450 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.449 | |
| 4rqk | ATP | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.449 | |
| 2qoq | ANP | Ephrin type-A receptor 3 | 2.7.10.1 | 0.448 | |
| 2yxu | ATP | Pyridoxal kinase | 2.7.1.35 | 0.447 | |
| 3say | OFT | Glycogen synthase kinase-3 beta | 2.7.11.26 | 0.447 | |
| 4rqv | ATP | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.447 | |
| 1nzd | UPG | DNA beta-glucosyltransferase | / | 0.446 | |
| 1sxj | ADP | Replication factor C subunit 5 | / | 0.446 | |
| 3qwb | NDP | Probable quinone oxidoreductase | 1.6.5.5 | 0.446 | |
| 4m87 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.446 | |
| 1kzj | CB3 | Thymidylate synthase | / | 0.445 | |
| 3ibq | ATP | Pyridoxal kinase | / | 0.445 | |
| 4gk2 | L66 | Ephrin type-A receptor 3 | 2.7.10.1 | 0.445 | |
| 4jia | 1K3 | Tyrosine-protein kinase JAK2 | / | 0.445 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.444 | |
| 3a4v | NAD | NDP-sugar epimerase | / | 0.444 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.444 | |
| 4anx | 534 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.444 | |
| 4ftr | 5HK | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.444 | |
| 4gk3 | L87 | Ephrin type-A receptor 3 | 2.7.10.1 | 0.444 | |
| 4hle | 17V | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.444 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.444 | |
| 3a4o | STU | Tyrosine-protein kinase Lyn | 2.7.10.2 | 0.443 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.442 | |
| 1nyx | DRF | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 2oby | NAP | Quinone oxidoreductase PIG3 | 1 | 0.442 | |
| 3ump | ATP | ATP-dependent 6-phosphofructokinase isozyme 2 | 2.7.1.11 | 0.442 | |
| 4hys | 1BJ | Mitogen-activated protein kinase 8 | 2.7.11.24 | 0.442 | |
| 4jaz | STL | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 2c54 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.441 | |
| 2yyi | FAD | 4-hydroxyphenylacetate 3-monooxygenase oxygenase component | 1.14.14.9 | 0.441 | |
| 4b8w | NAP | GDP-L-fucose synthase | 1.1.1.271 | 0.441 | |
| 4yr9 | NAD | L-threonine 3-dehydrogenase, mitochondrial | 1.1.1.103 | 0.441 | |
| 1hk3 | T44 | Serum albumin | / | 0.440 | |
| 1kkq | 471 | Peroxisome proliferator-activated receptor alpha | / | 0.440 | |
| 1rkx | NAD | CDP-D-glucose-4,6-dehydratase | / | 0.440 | |
| 1v9a | SAH | Uncharacterized protein | / | 0.440 | |
| 2fna | ADP | Uncharacterized protein | / | 0.440 | |
| 2ydi | YDI | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.440 | |
| 3a7h | ATP | Serine/threonine-protein kinase 24 | 2.7.11.1 | 0.440 | |
| 3cgb | COA | Coenzyme A disulfide reductase | / | 0.440 |