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 |
|---|---|---|---|
| 2hct | NMN | ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 | 3.2.2.6 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2hct | NMN | ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 | 3.2.2.6 | 1.000 | |
| 3dzj | NMN | ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 | 3.2.2.6 | 0.518 | |
| 2i65 | NAD | ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 | 3.2.2.6 | 0.517 | |
| 4rel | KMP | Glycosyltransferase | / | 0.497 | |
| 3dzk | NMN | ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 | 3.2.2.6 | 0.496 | |
| 2ivp | ATP | tRNA N6-adenosine threonylcarbamoyltransferase | / | 0.483 | |
| 2ivn | ANP | tRNA N6-adenosine threonylcarbamoyltransferase | / | 0.479 | |
| 1xzq | FON | tRNA modification GTPase MnmE | 3.6.5 | 0.478 | |
| 1x1c | SAH | C-20 methyltransferase | / | 0.472 | |
| 2r0p | K2C | Putative FAD-monooxygenase | / | 0.470 | |
| 1fap | RAP | Peptidyl-prolyl cis-trans isomerase FKBP1A | 5.2.1.8 | 0.466 | |
| 1fap | RAP | Serine/threonine-protein kinase mTOR | 2.7.11.1 | 0.466 | |
| 3pqb | VGP | Putative oxidoreductase | / | 0.464 | |
| 2e8u | IPE | Geranylgeranyl pyrophosphate synthase | / | 0.462 | |
| 3rsv | 3RS | Beta-secretase 1 | 3.4.23.46 | 0.462 | |
| 4dlc | UMP | Deoxyuridine triphosphatase, putative | / | 0.461 | |
| 2e9a | B28 | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) | 2.5.1.31 | 0.459 | |
| 4dk7 | 0KS | Oxysterols receptor LXR-beta | / | 0.458 | |
| 4drj | RAP | Serine/threonine-protein kinase mTOR | 2.7.11.1 | 0.457 | |
| 4drj | RAP | Peptidyl-prolyl cis-trans isomerase FKBP4 | 5.2.1.8 | 0.457 | |
| 4dkb | DUN | Deoxyuridine triphosphatase, putative | / | 0.456 | |
| 4gv4 | MEJ | Poly [ADP-ribose] polymerase 3 | 2.4.2.30 | 0.456 | |
| 1q1g | MTI | Purine nucleoside phosphorylase | / | 0.454 | |
| 2isc | 223 | Purine nucleoside phosphorylase, putative | / | 0.454 | |
| 4f7i | NAD | 3-isopropylmalate dehydrogenase | 1.1.1.85 | 0.452 | |
| 4guu | FA9 | Lysine-specific histone demethylase 1B | 1 | 0.451 | |
| 4bxk | 1IU | Angiotensin-converting enzyme | 3.2.1 | 0.450 | |
| 2xiq | 5AD | Methylmalonyl-CoA mutase, mitochondrial | / | 0.449 | |
| 3q9b | B3N | Acetylpolyamine amidohydrolase | / | 0.449 | |
| 1h83 | FAD | Polyamine oxidase | 1.5.3.14 | 0.448 | |
| 1k9s | FM1 | Purine nucleoside phosphorylase DeoD-type | / | 0.447 | |
| 2yg3 | FAD | Putrescine oxidase | / | 0.447 | |
| 4py0 | 6AT | P2Y purinoceptor 12 | / | 0.447 | |
| 2uxh | QUE | HTH-type transcriptional regulator TtgR | / | 0.446 | |
| 3ba6 | AN2 | Sarcoplasmic/endoplasmic reticulum calcium ATPase 1 | 3.6.3.8 | 0.446 | |
| 3ebi | BEY | M1 family aminopeptidase | 3.4.11 | 0.446 | |
| 4cdm | FO1 | Deoxyribodipyrimidine photolyase | / | 0.446 | |
| 4kq6 | DLZ | 6,7-dimethyl-8-ribityllumazine synthase | / | 0.446 | |
| 1oc1 | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 3rtn | RTN | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 1jdz | FMB | Purine nucleoside phosphorylase | / | 0.443 | |
| 1mkd | ZAR | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.443 | |
| 1ygj | RMC | Pyridoxal kinase | 2.7.1.35 | 0.443 | |
| 2nr4 | FMN | Conserved protein | / | 0.443 | |
| 2yay | DUP | DUTPase | / | 0.443 | |
| 3i9k | NAD | ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase | 3.2.2.6 | 0.443 | |
| 1d3p | BT3 | Prothrombin | 3.4.21.5 | 0.442 | |
| 1ta6 | 177 | Prothrombin | 3.4.21.5 | 0.442 | |
| 4j52 | 1J3 | Serine/threonine-protein kinase PLK1 | 2.7.11.21 | 0.442 | |
| 1dgg | NDP | Catalase | 1.11.1.6 | 0.441 | |
| 2xys | SY9 | Soluble acetylcholine receptor | / | 0.441 | |
| 3cow | 52H | Pantothenate synthetase | 6.3.2.1 | 0.441 | |
| 3fhx | PXL | Pyridoxal kinase | 2.7.1.35 | 0.441 | |
| 3gmd | 2M3 | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.441 | |
| 3hbf | MYC | Flavonoid 3-O-glucosyltransferase | 2.4.1 | 0.441 | |
| 4b78 | KGG | Beta-secretase 1 | 3.4.23.46 | 0.441 | |
| 4dan | 2FA | Purine nucleoside phosphorylase DeoD-type | 2.4.2.1 | 0.441 | |
| 1dr3 | HBI | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 1pqc | 444 | Oxysterols receptor LXR-beta | / | 0.440 | |
| 4gv0 | 8ME | Poly [ADP-ribose] polymerase 3 | 2.4.2.30 | 0.440 | |
| 4ia0 | 5BB | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.440 | |
| 5bn3 | ADP | V-type ATP synthase alpha chain | / | 0.440 | |
| 5bn3 | ADP | NEQ263 | / | 0.440 |