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 |
|---|---|---|---|
| 1ss9 | UPF | LgtC |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1ss9 | UPF | LgtC | / | 1.000 | |
| 1g9r | UPF | LgtC | / | 0.522 | |
| 3sqw | ANP | ATP-dependent RNA helicase MSS116, mitochondrial | 3.6.4.13 | 0.480 | |
| 3zec | ANP | Adenosine monophosphate-protein transferase SoFic | 2.7.7.n1 | 0.472 | |
| 4rhe | FMN | Flavin prenyltransferase UbiX | / | 0.463 | |
| 1ga8 | UPF | LgtC | / | 0.462 | |
| 2zi6 | 3D1 | Deoxycytidine kinase | 2.7.1.74 | 0.461 | |
| 3apf | BMW | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.461 | |
| 1a9z | UPG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.460 | |
| 1b5e | DCM | Deoxycytidylate 5-hydroxymethyltransferase | 2.1.2.8 | 0.459 | |
| 2v2z | CDM | 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase | / | 0.459 | |
| 2w0h | FAD | Trypanothione reductase | / | 0.459 | |
| 4mkb | 28V | Genome polyprotein | 2.7.7.48 | 0.457 | |
| 1b5d | DCM | Deoxycytidylate 5-hydroxymethyltransferase | 2.1.2.8 | 0.456 | |
| 3o7b | SAH | Ribosomal RNA small subunit methyltransferase Nep1 | / | 0.456 | |
| 3oqk | S52 | Renin | 3.4.23.15 | 0.456 | |
| 4fhd | 0TT | Spore photoproduct lyase | / | 0.455 | |
| 5dn1 | AMZ | Phosphoribosyl isomerase A | 5.3.1.16 | 0.455 | |
| 1rc4 | DDF | Dihydrofolate reductase | 1.5.1.3 | 0.454 | |
| 3ogw | IMN | Lactoperoxidase | 1.11.1.7 | 0.453 | |
| 2f99 | AKV | Aklanonic acid methyl ester cyclase AcmA | 5.5.1.23 | 0.452 | |
| 2iko | 7IG | Renin | 3.4.23.15 | 0.452 | |
| 3qeo | LLT | Deoxycytidine kinase | 2.7.1.74 | 0.451 | |
| 2v2q | NVG | 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase | / | 0.450 | |
| 2c1b | CQP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.449 | |
| 2cbj | OAN | O-GlcNAcase NagJ | / | 0.449 | |
| 2g22 | 6IG | Renin | 3.4.23.15 | 0.449 | |
| 1a9y | UPG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.448 | |
| 1jdz | FMB | Purine nucleoside phosphorylase | / | 0.448 | |
| 2f6r | ACO | Bifunctional coenzyme A synthase | / | 0.448 | |
| 4ndn | SAM | S-adenosylmethionine synthase isoform type-2 | 2.5.1.6 | 0.448 | |
| 3cav | CI2 | 3-oxo-5-beta-steroid 4-dehydrogenase | / | 0.447 | |
| 1db5 | 6IN | Phospholipase A2, membrane associated | / | 0.446 | |
| 1i75 | NOJ | Cyclomaltodextrin glucanotransferase | 2.4.1.19 | 0.446 | |
| 1x88 | NAT | Kinesin-like protein KIF11 | / | 0.446 | |
| 2a1y | 5GP | GMP reductase | / | 0.446 | |
| 2acw | UPG | Glycosyltransferase | / | 0.446 | |
| 3gn7 | 3GN | Poly [ADP-ribose] polymerase 1 | 2.4.2.30 | 0.446 | |
| 4gxs | 0YS | Glutamate receptor 2 | / | 0.446 | |
| 4o7n | ADP | Phosphoribosylaminoimidazole-succinocarboxamide synthase | 6.3.2.6 | 0.446 | |
| 4xz3 | COA | Acyl-CoA synthetase (NDP forming) | / | 0.446 | |
| 2zi5 | 3L1 | Deoxycytidine kinase | 2.7.1.74 | 0.445 | |
| 4jln | 18V | Deoxycytidine kinase | 2.7.1.74 | 0.445 | |
| 4g2y | NI5 | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.444 | |
| 4qjq | OTR | Lactoperoxidase | / | 0.444 | |
| 3sn6 | P0G | Beta-2 adrenergic receptor | / | 0.444 | |
| 1gxf | FAD | Trypanothione reductase | 1.8.1.12 | 0.443 | |
| 3oji | PYV | Abscisic acid receptor PYL3 | / | 0.443 | |
| 3ppk | FNI | Serine/threonine-protein kinase B-raf | 2.7.11.1 | 0.443 | |
| 4tx9 | AMZ | Phosphoribosyl isomerase A | / | 0.443 | |
| 5e5h | 0T1 | Succinyl-CoA:acetate CoA-transferase | / | 0.443 | |
| 3ime | BZ2 | Pantothenate synthetase | 6.3.2.1 | 0.442 | |
| 2hk9 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.441 | |
| 3dva | TPW | Pyruvate dehydrogenase E1 component subunit alpha | 1.2.4.1 | 0.441 | |
| 3dva | TPW | Pyruvate dehydrogenase E1 component subunit beta | 1.2.4.1 | 0.441 | |
| 3v8w | 0G2 | Tyrosine-protein kinase ITK/TSK | 2.7.10.2 | 0.441 | |
| 4p5f | AR6 | Inosine-uridine nucleoside N-ribohydrolase | / | 0.441 | |
| 1kqn | NAD | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 1 | 2.7.7.1 | 0.440 | |
| 1npd | NAD | Quinate/shikimate dehydrogenase | / | 0.440 | |
| 2in6 | 839 | Wee1-like protein kinase | 2.7.10.2 | 0.440 | |
| 2rlc | CHD | Choloylglycine hydrolase | 3.5.1.24 | 0.440 | |
| 3c34 | KAI | Glutamate receptor ionotropic, kainate 1 | / | 0.440 | |
| 3coy | 53H | Pantothenate synthetase | 6.3.2.1 | 0.440 | |
| 4j0k | EGR | Tannase | / | 0.440 |