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 |
|---|---|---|---|
| 4nqg | CZH | Mitrocomin |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4nqg | CZH | Mitrocomin | / | 1.000 | |
| 1uhj | CZB | Aequorin-2 | / | 0.652 | |
| 1uhh | CZP | Aequorin-2 | / | 0.651 | |
| 1qv1 | CZH | Obelin | / | 0.647 | |
| 1ej3 | CZH | Aequorin-2 | / | 0.641 | |
| 1jf0 | CZH | Obelin | / | 0.636 | |
| 1el4 | CTZ | Obelin | / | 0.634 | |
| 4n1f | CZH | Obelin | / | 0.623 | |
| 1qv0 | CZH | Obelin | / | 0.612 | |
| 1jf2 | CZH | Obelin | / | 0.611 | |
| 1s36 | CEI | Obelin | / | 0.575 | |
| 4mrx | CZH | Obelin | / | 0.544 | |
| 1ry8 | RUT | Aldo-keto reductase family 1 member C3 | / | 0.494 | |
| 1q0z | AKA | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.491 | |
| 4b14 | 4XB | Glycylpeptide N-tetradecanoyltransferase | / | 0.490 | |
| 1pqc | 444 | Oxysterols receptor LXR-beta | / | 0.478 | |
| 2yne | YNE | Glycylpeptide N-tetradecanoyltransferase | / | 0.477 | |
| 2cek | N8T | Acetylcholinesterase | 3.1.1.7 | 0.474 | |
| 3h3t | 16H | Collagen type IV alpha-3-binding protein | / | 0.474 | |
| 4b12 | C23 | Glycylpeptide N-tetradecanoyltransferase | / | 0.472 | |
| 1ry0 | PG2 | Aldo-keto reductase family 1 member C3 | / | 0.470 | |
| 3hbf | MYC | Flavonoid 3-O-glucosyltransferase | 2.4.1 | 0.470 | |
| 4kq6 | DLZ | 6,7-dimethyl-8-ribityllumazine synthase | / | 0.470 | |
| 2aou | CQA | Histamine N-methyltransferase | 2.1.1.8 | 0.467 | |
| 4jln | 18V | Deoxycytidine kinase | 2.7.1.74 | 0.467 | |
| 1o6q | R17 | Squalene--hopene cyclase | 4.2.1.129 | 0.466 | |
| 1q0r | AKT | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.465 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.465 | |
| 1yhj | R6C | Pyridoxal kinase | 2.7.1.35 | 0.464 | |
| 2jf6 | S55 | Strictosidine-O-beta-D-glucosidase | 3.2.1.105 | 0.464 | |
| 4b13 | X25 | Glycylpeptide N-tetradecanoyltransferase | / | 0.463 | |
| 2pr2 | DG1 | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.461 | |
| 4dbw | 511 | Aldo-keto reductase family 1 member C3 | / | 0.461 | |
| 4fa3 | 0SL | Aldo-keto reductase family 1 member C3 | / | 0.460 | |
| 1dgh | NDP | Catalase | 1.11.1.6 | 0.459 | |
| 2f38 | 15M | Aldo-keto reductase family 1 member C3 | / | 0.459 | |
| 5c1g | GDU | Histo-blood group ABO system transferase | / | 0.458 | |
| 2yy2 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.457 | |
| 4fam | 0SZ | Aldo-keto reductase family 1 member C3 | / | 0.457 | |
| 4zzi | 1NS | NAD-dependent protein deacetylase sirtuin-1 | 3.5.1 | 0.457 | |
| 4a95 | 9MT | Glycylpeptide N-tetradecanoyltransferase | / | 0.456 | |
| 1zgb | A1E | Acetylcholinesterase | 3.1.1.7 | 0.455 | |
| 4n1g | CEI | Obelin | / | 0.455 | |
| 1x8l | OXR | Retinol dehydratase | / | 0.454 | |
| 3dr4 | G4M | GDP-perosamine synthase | / | 0.454 | |
| 3frk | TQP | QdtB | / | 0.454 | |
| 1sl9 | CZH | Obelin | / | 0.453 | |
| 2ntv | P1H | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.453 | |
| 4bbh | YBN | Glycylpeptide N-tetradecanoyltransferase | / | 0.453 | |
| 7cat | NDP | Catalase | 1.11.1.6 | 0.452 | |
| 3qm4 | PN0 | Cytochrome P450 2D6 | / | 0.451 | |
| 2ntj | P1H | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.449 | |
| 3jyn | NDP | Quinone oxidoreductase | / | 0.449 | |
| 1h35 | R01 | Squalene--hopene cyclase | 4.2.1.129 | 0.448 | |
| 1kyv | RBF | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.448 | |
| 4r81 | FMN | Predicted NADH dehydrogenase | / | 0.448 | |
| 1icq | OPD | 12-oxophytodienoate reductase 1 | 1.3.1.42 | 0.447 | |
| 2bxo | OPB | Serum albumin | / | 0.447 | |
| 2vfz | UPF | N-acetyllactosaminide alpha-1,3-galactosyltransferase | / | 0.447 | |
| 3dr7 | GPD | GDP-perosamine synthase | / | 0.447 | |
| 3iel | U5P | Ribonuclease TTHA0252 | 3.1 | 0.447 | |
| 3jsx | CC2 | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.447 | |
| 1ygk | RRC | Pyridoxal kinase | 2.7.1.35 | 0.446 | |
| 2on6 | IMH | Purine nucleoside phosphorylase | 2.4.2.1 | 0.446 | |
| 3h3r | 14H | Collagen type IV alpha-3-binding protein | / | 0.446 | |
| 4a31 | 2CB | Glycylpeptide N-tetradecanoyltransferase | / | 0.446 | |
| 4iah | 1DX | Alr2278 protein | / | 0.446 | |
| 1ejb | INJ | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.445 | |
| 4boe | CLR | Japanin | / | 0.445 | |
| 1dgf | NDP | Catalase | 1.11.1.6 | 0.444 | |
| 1u65 | CP0 | Acetylcholinesterase | 3.1.1.7 | 0.444 | |
| 2xug | TZ4 | Acetylcholinesterase | 3.1.1.7 | 0.444 | |
| 4b11 | 7I1 | Glycylpeptide N-tetradecanoyltransferase | / | 0.444 | |
| 4bfu | ZVU | Pantothenate kinase | 2.7.1.33 | 0.444 | |
| 5irn | ADP | Nucleotide binding oligomerization domain containing 2 | / | 0.444 | |
| 1h36 | R88 | Squalene--hopene cyclase | 4.2.1.129 | 0.443 | |
| 1rft | PXM | Pyridoxal kinase | 2.7.1.35 | 0.443 | |
| 1zq5 | E04 | Aldo-keto reductase family 1 member C3 | / | 0.443 | |
| 3pqb | VGP | Putative oxidoreductase | / | 0.443 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.443 | |
| 4h7c | 10H | Aldo-keto reductase family 1 member C3 | / | 0.443 | |
| 1tg5 | 645 | 4-hydroxyphenylpyruvate dioxygenase | 1.13.11.27 | 0.442 | |
| 3uwe | VJJ | Aldo-keto reductase family 1 member C3 | / | 0.442 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.442 | |
| 1w6j | R71 | Lanosterol synthase | 5.4.99.7 | 0.440 | |
| 1ygj | RMC | Pyridoxal kinase | 2.7.1.35 | 0.440 | |
| 1zg3 | 2HI | Isoflavone 4'-O-methyltransferase | / | 0.440 | |
| 3h3q | H13 | Collagen type IV alpha-3-binding protein | / | 0.440 |