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 |
|---|---|---|---|
| 1v5y | 4HC | Major NAD(P)H-flavin oxidoreductase | 1.6.99 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1v5y | 4HC | Major NAD(P)H-flavin oxidoreductase | 1.6.99 | 1.000 | |
| 1v5z | 2HC | Major NAD(P)H-flavin oxidoreductase | 1.6.99 | 0.755 | |
| 3nsh | 957 | Beta-secretase 1 | 3.4.23.46 | 0.500 | |
| 4i0i | 957 | Beta-secretase 1 | 3.4.23.46 | 0.500 | |
| 1qrp | HH0 | Pepsin A-4 | 3.4.23.1 | 0.491 | |
| 2get | COK | Pantothenate kinase | 2.7.1.33 | 0.482 | |
| 2geu | COK | Pantothenate kinase | 2.7.1.33 | 0.478 | |
| 4exg | 916 | Beta-secretase 1 | 3.4.23.46 | 0.478 | |
| 1lf2 | R37 | Plasmepsin-2 | 3.4.23.39 | 0.469 | |
| 2ylr | NAP | Phenylacetone monooxygenase | 1.14.13.92 | 0.469 | |
| 4ewo | 996 | Beta-secretase 1 | 3.4.23.46 | 0.466 | |
| 2g1r | 3IG | Renin | 3.4.23.15 | 0.463 | |
| 2q1t | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.463 | |
| 5dp2 | NAP | CurF | / | 0.462 | |
| 3k5f | AYH | Beta-secretase 1 | 3.4.23.46 | 0.461 | |
| 3oqk | S52 | Renin | 3.4.23.15 | 0.460 | |
| 4gdd | NAI | UDP-galactopyranose mutase | / | 0.460 | |
| 4lxa | 1YS | Beta-secretase 1 | 3.4.23.46 | 0.459 | |
| 2g22 | 6IG | Renin | 3.4.23.15 | 0.458 | |
| 3d91 | REM | Renin | 3.4.23.15 | 0.457 | |
| 2il2 | LIX | Renin | 3.4.23.15 | 0.456 | |
| 2r8p | T6F | Transketolase 1 | / | 0.455 | |
| 3k5c | 0BI | Beta-secretase 1 | 3.4.23.46 | 0.455 | |
| 2g1s | 4IG | Renin | 3.4.23.15 | 0.454 | |
| 3b04 | OOP | Isopentenyl-diphosphate delta-isomerase | / | 0.454 | |
| 3udn | 09B | Beta-secretase 1 | 3.4.23.46 | 0.454 | |
| 1w6h | TIT | Plasmepsin-2 | 3.4.23.39 | 0.453 | |
| 1wam | FAD | UDP-galactopyranose mutase | 5.4.99.9 | 0.453 | |
| 2g8y | NAD | Hydroxycarboxylate dehydrogenase B | / | 0.453 | |
| 3lpj | Z75 | Beta-secretase 1 | 3.4.23.46 | 0.453 | |
| 4jay | NAP | UDP-N-acetylenolpyruvoylglucosamine reductase | / | 0.453 | |
| 4uwm | FMN | 3,6-diketocamphane 1,6 monooxygenase | 1.14.13 | 0.453 | |
| 3vyf | VYF | Renin | 3.4.23.15 | 0.452 | |
| 2nmt | MIM | Glycylpeptide N-tetradecanoyltransferase | 2.3.1.97 | 0.451 | |
| 2zsd | COA | Pantothenate kinase | 2.7.1.33 | 0.451 | |
| 2ztv | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.451 | |
| 4dpi | 0N1 | Beta-secretase 1 | 3.4.23.46 | 0.451 | |
| 2ges | COK | Pantothenate kinase | 2.7.1.33 | 0.450 | |
| 3k5g | BJC | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 4bxk | 1IU | Angiotensin-converting enzyme | 3.2.1 | 0.450 | |
| 4k9h | 1QU | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 2p83 | MR0 | Beta-secretase 1 | 3.4.23.46 | 0.449 | |
| 4d04 | NAP | Phenylacetone monooxygenase | 1.14.13.92 | 0.449 | |
| 2f3e | AXQ | Beta-secretase 1 | 3.4.23.46 | 0.448 | |
| 2g94 | ZPQ | Beta-secretase 1 | 3.4.23.46 | 0.448 | |
| 2iku | LIY | Renin | 3.4.23.15 | 0.448 | |
| 3cic | 316 | Beta-secretase 1 | 3.4.23.46 | 0.448 | |
| 3skg | PB8 | Beta-secretase 1 | 3.4.23.46 | 0.448 | |
| 3vsw | R31 | Renin | 3.4.23.15 | 0.448 | |
| 4rvg | TYD | D-mycarose 3-C-methyltransferase | / | 0.448 | |
| 4uug | PXG | Branched-chain amino acid aminotransferase, putative | / | 0.448 | |
| 1xs7 | MMI | Beta-secretase 1 | 3.4.23.46 | 0.447 | |
| 2iqg | F2I | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 3duy | AFJ | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 3lns | NAP | NAD(P)-dependent benzaldehyde dehydrogenase | 1.2.1.28 | 0.446 | |
| 1pwy | AC2 | Purine nucleoside phosphorylase | 2.4.2.1 | 0.445 | |
| 2g1o | 2IG | Renin | 3.4.23.15 | 0.445 | |
| 2wf0 | ZY0 | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 2x95 | X95 | Angiotensin-converting enzyme | 3.4.15.1 | 0.445 | |
| 3k5d | XLI | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 3udk | 095 | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 5doz | NDP | JamJ | / | 0.445 | |
| 2wf2 | ZY2 | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 4rvf | TYD | D-mycarose 3-C-methyltransferase | / | 0.444 | |
| 4rxr | DCP | Deoxynucleoside triphosphate triphosphohydrolase SAMHD1 | 3.1.5 | 0.444 | |
| 5js6 | NAD | 17-beta-hydroxysteroid dehydrogenase 14 | 1.1.1 | 0.444 | |
| 2g1y | 5IG | Renin | 3.4.23.15 | 0.443 | |
| 2iko | 7IG | Renin | 3.4.23.15 | 0.443 | |
| 3ukk | FAD | UDP-galactopyranose mutase | / | 0.443 | |
| 3vg1 | 0GT | Beta-secretase 1 | 3.4.23.46 | 0.443 | |
| 2x92 | X92 | Angiotensin-converting enzyme | 3.4.15.1 | 0.442 | |
| 3fap | ARD | Peptidyl-prolyl cis-trans isomerase FKBP1A | 5.2.1.8 | 0.442 | |
| 3fap | ARD | Serine/threonine-protein kinase mTOR | 2.7.11.1 | 0.442 | |
| 4frk | DWD | Beta-secretase 1 | 3.4.23.46 | 0.442 | |
| 3r2f | PB0 | Beta-secretase 1 | 3.4.23.46 | 0.441 | |
| 4e2z | JHZ | Methyltransferase | / | 0.441 | |
| 1r6t | TYM | Tryptophan--tRNA ligase, cytoplasmic | 6.1.1.2 | 0.440 | |
| 2oah | QIN | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 3uzw | NAP | 3-oxo-5-beta-steroid 4-dehydrogenase | / | 0.440 | |
| 4gv0 | 8ME | Poly [ADP-ribose] polymerase 3 | 2.4.2.30 | 0.440 | |
| 4lxk | 1YT | Beta-secretase 1 | 3.4.23.46 | 0.440 |