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 |
|---|---|---|---|
| 1m3q | ANG | N-glycosylase/DNA lyase | 3.2.2 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1m3q | ANG | N-glycosylase/DNA lyase | 3.2.2 | 1.000 | |
| 1mkd | ZAR | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.510 | |
| 2rdn | 1PL | 1-deoxypentalenic acid 11-beta-hydroxylase | 1.14.11.35 | 0.483 | |
| 2geu | COK | Pantothenate kinase | 2.7.1.33 | 0.471 | |
| 4z87 | GDP | Inosine-5'-monophosphate dehydrogenase | / | 0.468 | |
| 3gki | CLR | Niemann-Pick C1 protein | / | 0.467 | |
| 1t13 | INI | 6,7-dimethyl-8-ribityllumazine synthase 2 | / | 0.466 | |
| 2jav | 5Z5 | Serine/threonine-protein kinase Nek2 | 2.7.11.1 | 0.463 | |
| 4b2g | V1N | Uncharacterized protein | / | 0.463 | |
| 1udt | VIA | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.462 | |
| 2get | COK | Pantothenate kinase | 2.7.1.33 | 0.462 | |
| 4req | 5AD | Methylmalonyl-CoA mutase large subunit | 5.4.99.2 | 0.458 | |
| 1b8o | IMH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.454 | |
| 2zev | IPE | Geranylgeranyl pyrophosphate synthase | / | 0.454 | |
| 3e92 | G6A | Mitogen-activated protein kinase 14 | / | 0.454 | |
| 3ndj | JHZ | Methyltransferase | / | 0.453 | |
| 3tda | PN0 | Cytochrome P450 2D6 | / | 0.453 | |
| 5d7q | 4I5 | NAD-dependent protein deacetylase sirtuin-2 | 3.5.1 | 0.452 | |
| 1vbi | NAD | Malate/L-lactate dehydrogenase family protein | / | 0.451 | |
| 3af0 | GDP | Pantothenate kinase | 2.7.1.33 | 0.451 | |
| 2r2n | KYN | Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial | 2.6.1.39 | 0.449 | |
| 3jyo | NAD | Quinate/shikimate dehydrogenase (NAD(+)) | / | 0.449 | |
| 1uho | VDN | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.448 | |
| 3ada | NAD | Subunit alpha of sarocosine oxidase | / | 0.448 | |
| 4cdm | FO1 | Deoxyribodipyrimidine photolyase | / | 0.448 | |
| 1yun | ATP | Probable nicotinate-nucleotide adenylyltransferase | 2.7.7.18 | 0.446 | |
| 2c94 | TSF | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.446 | |
| 2uxu | NAR | HTH-type transcriptional regulator TtgR | / | 0.445 | |
| 4j52 | 1J3 | Serine/threonine-protein kinase PLK1 | 2.7.11.21 | 0.445 | |
| 4a6n | T1C | TetX family tetracycline inactivation enzyme | / | 0.444 | |
| 1xef | ATP | Alpha-hemolysin translocation ATP-binding protein HlyB | / | 0.443 | |
| 3pdn | SFG | Histone-lysine N-methyltransferase SMYD3 | 2.1.1.43 | 0.443 | |
| 4b12 | C23 | Glycylpeptide N-tetradecanoyltransferase | / | 0.443 | |
| 4kq6 | DLZ | 6,7-dimethyl-8-ribityllumazine synthase | / | 0.443 | |
| 5c1m | CLR | Mu-type opioid receptor | / | 0.443 | |
| 2j4l | UTP | Uridylate kinase | 2.7.4.22 | 0.442 | |
| 2r6j | NDP | Eugenol synthase 1 | 1.1.1.318 | 0.442 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.442 | |
| 4e32 | DWN | Methyltransferase | / | 0.442 | |
| 4xq9 | NAD | Homospermidine synthase | 2.5.1.44 | 0.442 | |
| 4s26 | SAH | Phosphomethylpyrimidine synthase, chloroplastic | 4.1.99.17 | 0.441 | |
| 3fzn | D7K | Benzoylformate decarboxylase | 4.1.1.7 | 0.440 | |
| 3sl2 | ATP | Sensor histidine kinase WalK | / | 0.440 | |
| 4h6z | ACO | Alpha-tubulin N-acetyltransferase 1 | / | 0.440 | |
| 4jlk | 1NO | Deoxycytidine kinase | 2.7.1.74 | 0.440 |