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 |
|---|---|---|---|
| 1w1v | ALJ | Chitinase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1w1v | ALJ | Chitinase | / | 1.000 | |
| 1o6i | 0HZ | Chitinase B | 3.2.1.14 | 0.588 | |
| 1e6z | NGO | Chitinase | / | 0.561 | |
| 2wjo | QUD | Beta-secretase 1 | 3.4.23.46 | 0.476 | |
| 3vv8 | B02 | Beta-secretase 1 | 3.4.23.46 | 0.474 | |
| 4c2z | 646 | Glycylpeptide N-tetradecanoyltransferase 1 | / | 0.471 | |
| 2c9z | QUE | Anthocyanidin 3-O-glucosyltransferase 2 | 2.4.1.115 | 0.470 | |
| 3gc4 | AAQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.468 | |
| 3rvi | RVI | Beta-secretase 1 | 3.4.23.46 | 0.468 | |
| 3q9b | B3N | Acetylpolyamine amidohydrolase | / | 0.467 | |
| 3rme | RME | Acidic mammalian chitinase | 3.2.1.14 | 0.466 | |
| 1efa | NPF | Lactose operon repressor | / | 0.464 | |
| 2our | CMP | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.464 | |
| 4isu | IKM | Glutamate receptor 2 | / | 0.464 | |
| 2g28 | TDK | Pyruvate dehydrogenase E1 component | 1.2.4.1 | 0.460 | |
| 4gv0 | 8ME | Poly [ADP-ribose] polymerase 3 | 2.4.2.30 | 0.460 | |
| 4h6p | FMN | Chromate reductase | / | 0.459 | |
| 1w1p | GIO | Chitinase | / | 0.458 | |
| 2fhj | H4Z | Formylmethanofuran--tetrahydromethanopterin formyltransferase | 2.3.1.101 | 0.458 | |
| 2v2z | CDM | 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase | / | 0.457 | |
| 4b72 | 2FB | Beta-secretase 1 | 3.4.23.46 | 0.456 | |
| 4frj | DWB | Beta-secretase 1 | 3.4.23.46 | 0.456 | |
| 3h0b | B35 | Beta-secretase 1 | 3.4.23.46 | 0.454 | |
| 4b78 | KGG | Beta-secretase 1 | 3.4.23.46 | 0.454 | |
| 2c1z | KMP | Anthocyanidin 3-O-glucosyltransferase 2 | 2.4.1.115 | 0.453 | |
| 3pdq | KC6 | Lysine-specific demethylase 4A | 1.14.11 | 0.453 | |
| 2wvl | GDD | Mannosyl-3-phosphogylcerate synthase | / | 0.452 | |
| 3owx | XRA | Ribosyldihydronicotinamide dehydrogenase [quinone] | / | 0.450 | |
| 3png | 8CX | Nitric oxide synthase, brain | 1.14.13.39 | 0.450 | |
| 3wd4 | A1L | Chitinase B | 3.2.1.14 | 0.450 | |
| 4acu | QN7 | Beta-secretase 1 | 3.4.23.46 | 0.450 | |
| 1gax | VAA | Valine--tRNA ligase | 6.1.1.9 | 0.447 | |
| 4djy | 0KR | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 4a30 | QMI | Glycylpeptide N-tetradecanoyltransferase | / | 0.445 | |
| 3rvh | HQ2 | Lysine-specific demethylase 4A | 1.14.11 | 0.444 | |
| 4i13 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.444 | |
| 1ex7 | 5GP | Guanylate kinase | 2.7.4.8 | 0.443 | |
| 1qjf | ACS | Isopenicillin N synthase | 1.21.3.1 | 0.443 | |
| 3gjw | GJW | Poly [ADP-ribose] polymerase 1 | 2.4.2.30 | 0.443 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.442 | |
| 4x7v | MIV | Mycinamicin III 3''-O-methyltransferase | 2.1.1.237 | 0.442 | |
| 1hb1 | OCV | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 2v2v | V12 | 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase | / | 0.441 | |
| 4b1e | 6T6 | Beta-secretase 1 | 3.4.23.46 | 0.441 | |
| 4r5w | XAV | Poly [ADP-ribose] polymerase 1 | 2.4.2.30 | 0.441 | |
| 5c6c | CMP | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.441 | |
| 1nsg | RAD | Peptidyl-prolyl cis-trans isomerase FKBP1A | 5.2.1.8 | 0.440 | |
| 1nsg | RAD | Serine/threonine-protein kinase mTOR | 2.7.11.1 | 0.440 | |
| 3g5s | FAD | Methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO | / | 0.440 | |
| 3qbj | NXZ | Dipeptidyl peptidase 4 | / | 0.440 | |
| 4h3j | 10W | Beta-secretase 1 | 3.4.23.46 | 0.440 |