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 |
|---|---|---|---|
| 1u1c | BAU | Uridine phosphorylase | 2.4.2.3 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1u1c | BAU | Uridine phosphorylase | 2.4.2.3 | 1.000 | |
| 1u1d | 181 | Uridine phosphorylase | 2.4.2.3 | 0.656 | |
| 1u1g | BBB | Uridine phosphorylase | 2.4.2.3 | 0.606 | |
| 1u1f | 183 | Uridine phosphorylase | 2.4.2.3 | 0.574 | |
| 4lzw | THM | Uridine phosphorylase | / | 0.525 | |
| 3p0e | BAU | Uridine phosphorylase 2 | 2.4.2.3 | 0.481 | |
| 1bk0 | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.478 | |
| 1yhj | R6C | Pyridoxal kinase | 2.7.1.35 | 0.475 | |
| 1hb3 | SCV | Isopenicillin N synthase | 1.21.3.1 | 0.473 | |
| 4g8j | THM | Uridine phosphorylase | / | 0.472 | |
| 4mvh | 2F5 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.472 | |
| 5c80 | URI | Uridine phosphorylase | / | 0.472 | |
| 2y6f | M9F | Isopenicillin N synthase | 1.21.3.1 | 0.469 | |
| 1xom | CIO | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.466 | |
| 2jb4 | A14 | Isopenicillin N synthase | 1.21.3.1 | 0.466 | |
| 3slk | NDP | Polyketide synthase extender module 2 | / | 0.466 | |
| 1ay0 | TPP | Transketolase 1 | 2.2.1.1 | 0.463 | |
| 2vcm | M11 | Isopenicillin N synthase | 1.21.3.1 | 0.462 | |
| 3jsx | CC2 | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.462 | |
| 1tgv | 5UD | Uridine phosphorylase | 2.4.2.3 | 0.461 | |
| 2vbp | VB1 | Isopenicillin N synthase | 1.21.3.1 | 0.461 | |
| 2fm5 | M99 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.459 | |
| 4fhd | 0TT | Spore photoproduct lyase | / | 0.459 | |
| 2ivi | ACW | Isopenicillin N synthase | 1.21.3.1 | 0.458 | |
| 2qim | ZEA | Class 10 plant pathogenesis-related protein | / | 0.458 | |
| 2ouu | 35G | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.457 | |
| 3bi6 | 396 | Wee1-like protein kinase | 2.7.10.2 | 0.457 | |
| 4a3u | FMN | NADH:flavin oxidoreductase/NADH oxidase | / | 0.457 | |
| 4fcd | 0T6 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.457 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.456 | |
| 2y60 | M8F | Isopenicillin N synthase | 1.21.3.1 | 0.456 | |
| 1hb1 | OCV | Isopenicillin N synthase | 1.21.3.1 | 0.455 | |
| 3p8i | FMN | Pentaerythritol tetranitrate reductase | / | 0.455 | |
| 5kgh | ACO | Predicted acetyltransferase | / | 0.455 | |
| 2bu9 | HFV | Isopenicillin N synthase | 1.21.3.1 | 0.454 | |
| 3euf | BAU | Uridine phosphorylase 1 | / | 0.454 | |
| 4ryv | ZEA | Protein LlR18A | / | 0.454 | |
| 1txt | CAA | HMG-CoA synthase | / | 0.452 | |
| 1blz | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.451 | |
| 4bbh | YBN | Glycylpeptide N-tetradecanoyltransferase | / | 0.451 | |
| 3v94 | WYQ | Phosphodiesterase | / | 0.450 | |
| 3vg9 | ZMA | Adenosine receptor A2a | / | 0.450 | |
| 2gev | COK | Pantothenate kinase | 2.7.1.33 | 0.449 | |
| 2nnq | T4B | Fatty acid-binding protein, adipocyte | / | 0.449 | |
| 3sni | 546 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.449 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.449 | |
| 4iae | 1DX | Alr2278 protein | / | 0.449 | |
| 1mkd | ZAR | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.448 | |
| 1qiq | ACC | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 2ea2 | F77 | Methionine aminopeptidase 2 | / | 0.448 | |
| 2our | CMP | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.448 | |
| 2vbd | V10 | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 2lba | CHO | Fatty acid binding protein 6 | / | 0.447 | |
| 4muw | 2F4 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.447 | |
| 1uzw | CDH | Isopenicillin N synthase | 1.21.3.1 | 0.446 | |
| 3h3t | 16H | Collagen type IV alpha-3-binding protein | / | 0.446 | |
| 3fr5 | I4A | Fatty acid-binding protein, adipocyte | / | 0.445 | |
| 3mpi | FAD | Glutaryl-CoA dehydrogenase | 1.3.99.32 | 0.445 | |
| 3q43 | D66 | M1 family aminopeptidase | 3.4.11 | 0.445 | |
| 4ft7 | H3K | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.445 | |
| 4rh1 | 0TT | Spore photoproduct lyase | / | 0.445 | |
| 1xf0 | ASD | Aldo-keto reductase family 1 member C3 | / | 0.444 | |
| 1y2c | 3DE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.444 | |
| 4aux | XTC | Tetracycline repressor protein class D | / | 0.444 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.444 | |
| 4frk | DWD | Beta-secretase 1 | 3.4.23.46 | 0.444 | |
| 4iar | ERM | 5-hydroxytryptamine receptor 1B | / | 0.444 | |
| 2xvi | FAD | Putative flavin-containing monooxygenase | / | 0.443 | |
| 4a81 | DXC | Major pollen allergen Bet v 1-A | / | 0.443 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.443 | |
| 4g3j | VNT | Lanosterol 14-alpha-demethylase | / | 0.443 | |
| 2e9u | A25 | Serine/threonine-protein kinase Chk1 | 2.7.11.1 | 0.442 | |
| 3fhx | PXL | Pyridoxal kinase | 2.7.1.35 | 0.442 | |
| 4bfz | ZVZ | Pantothenate kinase | 2.7.1.33 | 0.442 | |
| 4iah | 1DX | Alr2278 protein | / | 0.442 | |
| 4k36 | SAM | Anaerobic sulfatase-maturating enzyme | 1.8.98 | 0.442 | |
| 1mcz | RMN | Benzoylformate decarboxylase | 4.1.1.7 | 0.441 | |
| 1obn | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 3qe2 | FMN | NADPH--cytochrome P450 reductase | / | 0.441 | |
| 4hf4 | 15H | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.441 | |
| 1ex7 | 5GP | Guanylate kinase | 2.7.4.8 | 0.440 | |
| 2g8y | NAD | Hydroxycarboxylate dehydrogenase B | / | 0.440 | |
| 2yne | YNE | Glycylpeptide N-tetradecanoyltransferase | / | 0.440 | |
| 3itu | IBM | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.440 | |
| 5f54 | TMP | Single-stranded-DNA-specific exonuclease | / | 0.440 |