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 |
|---|---|---|---|
| 1fxs | NAP | GDP-L-fucose synthase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1fxs | NAP | GDP-L-fucose synthase | / | 1.000 | |
| 1bsv | NDP | GDP-L-fucose synthase | / | 0.836 | |
| 1bws | NDP | GDP-L-fucose synthase | / | 0.543 | |
| 1e7q | NAP | GDP-L-fucose synthase | / | 0.542 | |
| 4u7w | NDP | MxaA | / | 0.484 | |
| 3a1n | NAD | NDP-sugar epimerase | / | 0.473 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.473 | |
| 1dxq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.472 | |
| 3a4v | NAD | NDP-sugar epimerase | / | 0.472 | |
| 4h8a | NAI | Ureidoglycolate dehydrogenase (NAD(+)) | 1.1.1.350 | 0.472 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.471 | |
| 3ruc | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.471 | |
| 4yr9 | NAD | L-threonine 3-dehydrogenase, mitochondrial | 1.1.1.103 | 0.471 | |
| 1o0s | NAI | NAD-dependent malic enzyme, mitochondrial | 1.1.1.38 | 0.470 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.465 | |
| 3d3w | NAP | L-xylulose reductase | 1.1.1.10 | 0.463 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.462 | |
| 4b8z | NAP | GDP-L-fucose synthase | 1.1.1.271 | 0.462 | |
| 4gid | 0GH | Beta-secretase 1 | 3.4.23.46 | 0.461 | |
| 4ynt | FDA | Glucose oxidase, putative | / | 0.461 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.460 | |
| 4kwh | NAP | Reductase homolog | / | 0.460 | |
| 4uwm | FMN | 3,6-diketocamphane 1,6 monooxygenase | 1.14.13 | 0.459 | |
| 2wf4 | ZY4 | Beta-secretase 1 | 3.4.23.46 | 0.458 | |
| 3oqk | S52 | Renin | 3.4.23.15 | 0.458 | |
| 1ae1 | NAP | Tropinone reductase 1 | / | 0.457 | |
| 2c59 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.457 | |
| 4dbz | NDP | Putative ketoacyl reductase | 1.3.1 | 0.457 | |
| 1nuq | NXX | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3 | / | 0.455 | |
| 1x7g | NAP | Putative ketoacyl reductase | 1.3.1 | 0.455 | |
| 2ztv | NAD | D(-)-3-hydroxybutyrate dehydrogenase | / | 0.455 | |
| 1d0m | BLG | Membrane-bound lytic murein transglycosylase B | 4.2.2.n1 | 0.454 | |
| 1gg5 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.454 | |
| 2y99 | NAD | Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase | 1.3.1.56 | 0.453 | |
| 3lu1 | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.453 | |
| 2vbp | VB1 | Isopenicillin N synthase | 1.21.3.1 | 0.452 | |
| 3atz | FMN | Prostaglandin F2a synthase | / | 0.452 | |
| 1nuu | NAD | Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3 | / | 0.451 | |
| 2nry | STU | Interleukin-1 receptor-associated kinase 4 | 2.7.11.1 | 0.451 | |
| 3cid | 318 | Beta-secretase 1 | 3.4.23.46 | 0.451 | |
| 3rud | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.451 | |
| 4yxm | 2BA | DNA integrity scanning protein DisA | / | 0.451 | |
| 1udy | FAD | Medium-chain specific acyl-CoA dehydrogenase, mitochondrial | 1.3.8.7 | 0.450 | |
| 2vj6 | VG5 | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 2x9d | ITC | Tetracycline repressor protein class D | / | 0.450 | |
| 4gll | NAD | UDP-glucuronic acid decarboxylase 1 | 4.1.1.35 | 0.450 | |
| 4nwz | FAD | FAD-dependent pyridine nucleotide-disulfide oxidoreductase | / | 0.450 | |
| 4b8w | NAP | GDP-L-fucose synthase | 1.1.1.271 | 0.449 | |
| 4yag | NAI | C alpha-dehydrogenase | / | 0.449 | |
| 1eq2 | NAP | ADP-L-glycero-D-manno-heptose-6-epimerase | / | 0.448 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.448 | |
| 2p5u | NAD | UDP-glucose 4-epimerase | / | 0.448 | |
| 2x0i | NAI | Malate dehydrogenase | / | 0.448 | |
| 2xvi | FAD | Putative flavin-containing monooxygenase | / | 0.448 | |
| 1h69 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.447 | |
| 3mk6 | ACO | Pantothenate kinase 3 | 2.7.1.33 | 0.447 | |
| 4rvg | TYD | D-mycarose 3-C-methyltransferase | / | 0.447 | |
| 1uu9 | BI3 | 3-phosphoinositide-dependent protein kinase 1 | 2.7.11.1 | 0.446 | |
| 2irz | I02 | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 2vij | C44 | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 3lpk | Z76 | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 5dp2 | NAP | CurF | / | 0.446 | |
| 1g6k | NAD | Glucose 1-dehydrogenase | 1.1.1.47 | 0.445 | |
| 1xs7 | MMI | Beta-secretase 1 | 3.4.23.46 | 0.445 | |
| 3d91 | REM | Renin | 3.4.23.15 | 0.445 | |
| 3g5s | FAD | Methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO | / | 0.445 | |
| 4eag | ATP | 5'-AMP-activated protein kinase subunit gamma-1 | / | 0.445 | |
| 4ewn | 0VR | Imidazole glycerol phosphate synthase subunit HisF | 4.1.3 | 0.445 | |
| 1e3e | NAI | Alcohol dehydrogenase 4 | 1.1.1.1 | 0.444 | |
| 1h74 | ADP | Homoserine kinase | 2.7.1.39 | 0.444 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.444 | |
| 3ohh | 3HH | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.443 | |
| 2g5c | NAD | Prephenate dehydrogenase | / | 0.443 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.443 | |
| 3oev | 3OE | Proteasome subunit beta type-5 | 3.4.25.1 | 0.443 | |
| 3oev | 3OE | Proteasome subunit beta type-6 | 3.4.25.1 | 0.443 | |
| 3q43 | D66 | M1 family aminopeptidase | 3.4.11 | 0.443 | |
| 4fw8 | NAI | 3-oxoacyl-(Acyl-carrier-protein) reductase | / | 0.443 | |
| 1nah | NAD | UDP-glucose 4-epimerase | 5.1.3.2 | 0.442 | |
| 1rne | C60 | Renin | 3.4.23.15 | 0.442 | |
| 3v2u | ATP | Protein GAL3 | / | 0.442 | |
| 2cmj | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.441 | |
| 2ivi | ACW | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 2wf3 | ZY3 | Beta-secretase 1 | 3.4.23.46 | 0.441 | |
| 4iqg | NAP | Short-chain dehydrogenase/reductase SDR | / | 0.441 | |
| 1kkq | 471 | Peroxisome proliferator-activated receptor alpha | / | 0.440 | |
| 1ps9 | MDE | 2,4-dienoyl-CoA reductase | 1.3.1.34 | 0.440 | |
| 2j3j | HC4 | NADPH-dependent oxidoreductase 2-alkenal reductase | 1.3.1.74 | 0.440 | |
| 3o26 | NDP | Salutaridine reductase | / | 0.440 | |
| 3qbh | QBH | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 3ruf | NAD | UDP-N-acetylglucosamine 4-epimerase | / | 0.440 | |
| 4fj1 | NAP | 17beta-hydroxysteroid dehydrogenase | / | 0.440 | |
| 4frk | DWD | Beta-secretase 1 | 3.4.23.46 | 0.440 |