sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
Cavities 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
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 4i9q | XG4 | DNA-directed DNA polymerase |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 4i9q | XG4 | DNA-directed DNA polymerase | / | 1.000 | |
| 1waj | 5GP | DNA-directed DNA polymerase | / | 0.616 | |
| 1clq | GDP | DNA-directed DNA polymerase | / | 0.593 | |
| 1ih7 | GMP | DNA-directed DNA polymerase | / | 0.588 | |
| 3cfo | GMP | DNA-directed DNA polymerase | / | 0.588 | |
| 4khn | XG4 | DNA-directed DNA polymerase | / | 0.547 | |
| 1pxg | PRF | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.484 | |
| 2v2z | CDM | 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase | / | 0.476 | |
| 1k4g | AIQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.468 | |
| 5c8d | 5AD | Probable transcriptional regulator | / | 0.467 | |
| 2ea1 | GPG | Ribonuclease I | 3.1.27.6 | 0.462 | |
| 2c1z | KMP | Anthocyanidin 3-O-glucosyltransferase 2 | 2.4.1.115 | 0.460 | |
| 1y2c | 3DE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.458 | |
| 2ipj | FFA | Aldo-keto reductase family 1 member C2 | / | 0.458 | |
| 2oaz | I96 | Methionine aminopeptidase 2 | / | 0.457 | |
| 2olc | ADP | Methylthioribose kinase | 2.7.1.100 | 0.455 | |
| 4l0o | PLP | Cystathionine gamma-synthase | 2.5.1.48 | 0.455 | |
| 2anb | 5GP | Guanylate kinase | 2.7.4.8 | 0.454 | |
| 4l2z | S7M | S-adenosylmethionine synthase | / | 0.452 | |
| 1f3e | DPZ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.451 | |
| 2bn4 | FAD | NADPH--cytochrome P450 reductase | / | 0.450 | |
| 3l3l | L3L | Poly [ADP-ribose] polymerase 1 | 2.4.2.30 | 0.450 | |
| 2b51 | UTP | RNA editing complex protein MP57 | / | 0.449 | |
| 2c1z | U2F | Anthocyanidin 3-O-glucosyltransferase 2 | 2.4.1.115 | 0.449 | |
| 2v8p | CDP | 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase | / | 0.448 | |
| 1e80 | 0GQ | Endothiapepsin | 3.4.23.22 | 0.447 | |
| 2a4x | BLM | Mitomycin-binding protein | / | 0.447 | |
| 4llk | MEW | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.447 | |
| 3dyn | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.446 | |
| 3dys | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.446 | |
| 1nbi | SAM | Glycine N-methyltransferase | 2.1.1.20 | 0.445 | |
| 3anm | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.445 | |
| 3fp0 | FP0 | 15-O-acetyltransferase | / | 0.445 | |
| 3gxf | IFM | Glucosylceramidase | 3.2.1.45 | 0.445 | |
| 4x5f | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.445 | |
| 2pbw | DOQ | Glutamate receptor ionotropic, kainate 1 | / | 0.443 | |
| 3fr5 | I4A | Fatty acid-binding protein, adipocyte | / | 0.443 | |
| 1diu | BDM | Dihydrofolate reductase | 1.5.1.3 | 0.442 | |
| 1k4h | APQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.442 | |
| 3kt8 | LTN | Tryptophan--tRNA ligase, cytoplasmic | 6.1.1.2 | 0.442 | |
| 2a3b | CFF | Endochitinase B1 | 3.2.1.14 | 0.441 | |
| 2bt4 | CA2 | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.441 | |
| 3lfz | ADP | Uncharacterized protein MJ1225 | / | 0.441 | |
| 1ppk | IVV | Penicillopepsin-1 | 3.4.23.20 | 0.440 | |
| 4lm4 | JPZ | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.440 |