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 |
|---|---|---|---|
| 1n2v | BDI | Queuine tRNA-ribosyltransferase | 2.4.2.29 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1n2v | BDI | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 1.000 | |
| 2qzr | S79 | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.576 | |
| 1k4h | APQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.544 | |
| 1k4g | AIQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.508 | |
| 1f3e | DPZ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.493 | |
| 1uae | UD1 | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | / | 0.490 | |
| 1vbi | NAD | Malate/L-lactate dehydrogenase family protein | / | 0.482 | |
| 2z1w | BDI | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.478 | |
| 2j41 | 5GP | Guanylate kinase | / | 0.477 | |
| 4hsh | QEI | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.475 | |
| 1efz | PRF | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.473 | |
| 3gc5 | 2MQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.471 | |
| 1y5x | E89 | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.470 | |
| 2zrz | FNR | Isopentenyl-diphosphate delta-isomerase | / | 0.466 | |
| 4g2j | 0WF | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.466 | |
| 4q8p | CKR | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.465 | |
| 3dyl | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.463 | |
| 4g2l | 0WL | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.463 | |
| 3rsv | 3RS | Beta-secretase 1 | 3.4.23.46 | 0.458 | |
| 4m49 | 22Y | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.457 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.456 | |
| 1qiq | ACC | Isopenicillin N synthase | 1.21.3.1 | 0.455 | |
| 4do3 | 0LA | Fatty-acid amide hydrolase 1 | 3.5.1.99 | 0.455 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.455 | |
| 4d9e | LCS | D-cysteine desulfhydrase | / | 0.454 | |
| 4gh1 | 0WX | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.454 | |
| 3n3z | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.453 | |
| 1qjf | ACS | Isopenicillin N synthase | 1.21.3.1 | 0.452 | |
| 3dys | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.452 | |
| 4d9f | DCS | D-cysteine desulfhydrase | / | 0.452 | |
| 1xl8 | 152 | Peroxisomal carnitine O-octanoyltransferase | 2.3.1.137 | 0.451 | |
| 3lnc | 5GP | Guanylate kinase | / | 0.451 | |
| 2bbf | 344 | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.450 | |
| 3b7d | CNI | Glutamate receptor 2 | / | 0.450 | |
| 3dys | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.449 | |
| 3k3h | BYE | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.449 | |
| 4cjx | 9L9 | C-1-tetrahydrofolate synthase, cytoplasmic, putative | / | 0.449 | |
| 4gd9 | BTN | Streptavidin | / | 0.449 | |
| 1eio | GCH | Gastrotropin | / | 0.448 | |
| 2zrx | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.448 | |
| 3bv7 | NAP | 3-oxo-5-beta-steroid 4-dehydrogenase | / | 0.448 | |
| 3n87 | N87 | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.447 | |
| 3jsw | JAR | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.446 | |
| 1piw | NAP | NADP-dependent alcohol dehydrogenase 6 | 1.1.1.2 | 0.445 | |
| 1xp8 | AGS | Protein RecA | / | 0.445 | |
| 2eer | NAD | NAD-dependent alcohol dehydrogenase | 1.1.1.1 | 0.445 | |
| 2rlc | CHD | Choloylglycine hydrolase | 3.5.1.24 | 0.445 | |
| 2vbp | VB1 | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 2zat | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.445 | |
| 3ag6 | PAJ | Pantothenate synthetase | / | 0.444 | |
| 4na4 | A1R | Poly(ADP-ribose) glycohydrolase | 3.2.1.143 | 0.444 | |
| 1a2n | TET | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | / | 0.443 | |
| 2o1s | TDP | 1-deoxy-D-xylulose-5-phosphate synthase | 2.2.1.7 | 0.443 | |
| 3lth | UD1 | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | / | 0.443 | |
| 4bft | ZVT | Pantothenate kinase | 2.7.1.33 | 0.443 | |
| 4gh6 | LUO | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.443 | |
| 1y5w | NEZ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.442 | |
| 2vbd | V10 | Isopenicillin N synthase | 1.21.3.1 | 0.442 | |
| 3o4r | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.442 | |
| 3wqu | ATP | Cell division protein FtsA | / | 0.442 | |
| 3dy8 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.441 | |
| 4a2z | VIQ | Glycylpeptide N-tetradecanoyltransferase | / | 0.441 | |
| 4b65 | FAD | L-ornithine N(5)-monooxygenase | / | 0.441 | |
| 1q4w | DQU | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.440 | |
| 2x06 | NAD | L-sulfolactate dehydrogenase | / | 0.440 | |
| 3qwb | NDP | Probable quinone oxidoreductase | 1.6.5.5 | 0.440 | |
| 4opg | FDA | Conserved Archaeal protein | / | 0.440 |