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 |
|---|---|---|---|
| 3iex | GMP | Purine nucleoside phosphorylase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3iex | GMP | Purine nucleoside phosphorylase | / | 1.000 | |
| 3faz | NOS | Purine nucleoside phosphorylase | / | 0.642 | |
| 2on6 | IMH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.552 | |
| 3djf | BC3 | Purine nucleoside phosphorylase | / | 0.545 | |
| 1rr6 | IMH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.520 | |
| 1rt9 | IMH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.505 | |
| 1rfg | GMP | Purine nucleoside phosphorylase | 2.4.2.1 | 0.496 | |
| 3ggs | 2FD | Purine nucleoside phosphorylase | 2.4.2.1 | 0.493 | |
| 1v3q | 2DI | Purine nucleoside phosphorylase | 2.4.2.1 | 0.491 | |
| 2oc9 | IMH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.488 | |
| 2a0x | DIH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.485 | |
| 2a0y | DIH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.484 | |
| 2a0w | DIH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.480 | |
| 3f8w | ADN | Purine nucleoside phosphorylase | / | 0.479 | |
| 1rsz | DIH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.477 | |
| 1pf7 | IMH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.476 | |
| 4b4w | 9L9 | Bifunctional protein FolD | / | 0.476 | |
| 2oc4 | IMH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.475 | |
| 3k8q | 22A | Purine nucleoside phosphorylase | 2.4.2.1 | 0.475 | |
| 2jj2 | ANP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.474 | |
| 4kq6 | DLZ | 6,7-dimethyl-8-ribityllumazine synthase | / | 0.474 | |
| 1qor | NDP | Quinone oxidoreductase 1 | / | 0.471 | |
| 4b63 | NAP | L-ornithine N(5)-monooxygenase | / | 0.468 | |
| 1lv8 | 9PP | Purine nucleoside phosphorylase | 2.4.2.1 | 0.467 | |
| 2v59 | LZK | Biotin carboxylase | 6.3.4.14 | 0.467 | |
| 1lnm | DTX | Bilin-binding protein | / | 0.465 | |
| 2xuo | TZ4 | Acetylcholinesterase | 3.1.1.7 | 0.465 | |
| 1lvu | 9PP | Purine nucleoside phosphorylase | 2.4.2.1 | 0.463 | |
| 1fxu | GU7 | Purine nucleoside phosphorylase | 2.4.2.1 | 0.462 | |
| 1w6r | GNT | Acetylcholinesterase | 3.1.1.7 | 0.462 | |
| 1yry | MSG | Purine nucleoside phosphorylase | 2.4.2.1 | 0.461 | |
| 2cek | N8T | Acetylcholinesterase | 3.1.1.7 | 0.460 | |
| 2i65 | NAD | ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 | 3.2.2.6 | 0.458 | |
| 5ah5 | LSS | Leucine--tRNA ligase | / | 0.458 | |
| 3bgs | DIH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.457 | |
| 1ja1 | FMN | NADPH--cytochrome P450 reductase | / | 0.456 | |
| 1q0z | AKA | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.456 | |
| 1pwy | AC2 | Purine nucleoside phosphorylase | 2.4.2.1 | 0.453 | |
| 3jsx | CC2 | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.453 | |
| 1sdw | IYT | Peptidyl-glycine alpha-amidating monooxygenase | 1.14.17.3 | 0.450 | |
| 3c3x | NAP | Eugenol synthase 1 | 1.1.1.318 | 0.450 | |
| 3mau | EXT | Putative sphingosine-1-phosphate lyase | / | 0.448 | |
| 4bfu | ZVU | Pantothenate kinase | 2.7.1.33 | 0.448 | |
| 1amo | FMN | NADPH--cytochrome P450 reductase | / | 0.447 | |
| 3zv7 | NHG | Acetylcholinesterase | 3.1.1.7 | 0.447 | |
| 4b66 | NAP | L-ornithine N(5)-monooxygenase | / | 0.447 | |
| 5doz | NDP | JamJ | / | 0.447 | |
| 4j7h | TRH | PCZA361.3 | / | 0.446 | |
| 2ges | COK | Pantothenate kinase | 2.7.1.33 | 0.445 | |
| 4bfz | ZVZ | Pantothenate kinase | 2.7.1.33 | 0.445 | |
| 4dbs | 0HV | Aldo-keto reductase family 1 member C3 | / | 0.445 | |
| 4jzr | 4JR | Egl nine homolog 1 | / | 0.445 | |
| 5jqh | CAU | Beta-2 adrenergic receptor | / | 0.445 | |
| 1obn | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.444 | |
| 1w6j | R71 | Lanosterol synthase | 5.4.99.7 | 0.444 | |
| 2oad | GTB | Glutathione S-transferase P 1 | 2.5.1.18 | 0.444 | |
| 4b4v | L34 | Bifunctional protein FolD | / | 0.444 | |
| 4b68 | NAP | L-ornithine N(5)-monooxygenase | / | 0.444 | |
| 4ho6 | UTP | Glucose-1-phosphate thymidylyltransferase | / | 0.444 | |
| 1eve | E20 | Acetylcholinesterase | 3.1.1.7 | 0.443 | |
| 2ed4 | NAD | 4-hydroxyphenylacetate 3-monooxygenase reductase component | 1.5.1.36 | 0.443 | |
| 2pia | FMN | Phthalate dioxygenase reductase | / | 0.443 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.443 | |
| 1a9s | NOS | Purine nucleoside phosphorylase | 2.4.2.1 | 0.442 | |
| 1uda | UFG | UDP-glucose 4-epimerase | 5.1.3.2 | 0.442 | |
| 2ckm | AA7 | Acetylcholinesterase | 3.1.1.7 | 0.442 | |
| 2pzj | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.442 | |
| 4o7u | THF | Thymidylate synthase | / | 0.442 | |
| 1i7p | FAD | NADH-cytochrome b5 reductase 3 | 1.6.2.2 | 0.441 | |
| 1piw | NAP | NADP-dependent alcohol dehydrogenase 6 | 1.1.1.2 | 0.441 | |
| 1u65 | CP0 | Acetylcholinesterase | 3.1.1.7 | 0.441 | |
| 2zc9 | 22U | Prothrombin | 3.4.21.5 | 0.441 | |
| 4ead | 0NP | Thymidine phosphorylase | 2.4.2.4 | 0.441 | |
| 4nhy | PD2 | Prolyl 3-hydroxylase OGFOD1 | 1.14.11 | 0.441 | |
| 4s1i | PLP | Pyridoxal kinase, putative | / | 0.441 | |
| 4zzi | 1NS | NAD-dependent protein deacetylase sirtuin-1 | 3.5.1 | 0.441 | |
| 2g8y | NAD | Hydroxycarboxylate dehydrogenase B | / | 0.440 | |
| 3g0b | T22 | Dipeptidyl peptidase 4 | / | 0.440 | |
| 3ozd | 4CT | S-methyl-5'-thioadenosine phosphorylase | / | 0.440 | |
| 3q9b | B3N | Acetylpolyamine amidohydrolase | / | 0.440 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.440 | |
| 4jsr | 1NQ | NAD-dependent protein deacetylase sirtuin-3, mitochondrial | 3.5.1 | 0.440 |