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 |
|---|---|---|---|
| 3w5t | LHP | Vitamin D3 receptor |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 3w5t | LHP | Vitamin D3 receptor | / | 1.000 | |
| 3w5r | LOA | Vitamin D3 receptor | / | 0.717 | |
| 1rkg | VD1 | Vitamin D3 receptor | / | 0.701 | |
| 2o4r | VD5 | Vitamin D3 receptor | / | 0.699 | |
| 4itf | TFY | Vitamin D3 receptor | / | 0.666 | |
| 4q0a | 4OA | Vitamin D3 receptor A | / | 0.663 | |
| 3kpz | ZNE | Vitamin D3 receptor | / | 0.654 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.654 | |
| 1txi | TX5 | Vitamin D3 receptor | / | 0.651 | |
| 2zlc | VDX | Vitamin D3 receptor | / | 0.650 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.649 | |
| 3w0h | W12 | Vitamin D3 receptor | / | 0.648 | |
| 3w5p | 4OA | Vitamin D3 receptor | / | 0.647 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.647 | |
| 4g21 | 0VP | Vitamin D3 receptor A | / | 0.645 | |
| 1rkh | VD2 | Vitamin D3 receptor | / | 0.644 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.642 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.642 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.641 | |
| 4g2h | 0VQ | Vitamin D3 receptor A | / | 0.641 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.641 | |
| 1s19 | MC9 | Vitamin D3 receptor | / | 0.640 | |
| 2hbh | XE4 | Vitamin D3 receptor A | / | 0.640 | |
| 3a78 | 3EV | Vitamin D3 receptor | / | 0.638 | |
| 3vt6 | 5YI | Vitamin D3 receptor | / | 0.637 | |
| 4g1d | 0VK | Vitamin D3 receptor A | / | 0.637 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.637 | |
| 3dr1 | C5D | Vitamin D3 receptor A | / | 0.633 | |
| 1rk3 | VDX | Vitamin D3 receptor | / | 0.631 | |
| 2har | OCC | Vitamin D3 receptor | / | 0.630 | |
| 3vt3 | VDX | Vitamin D3 receptor | / | 0.630 | |
| 1rjk | VDZ | Vitamin D3 receptor | / | 0.628 | |
| 4g1y | 0VO | Vitamin D3 receptor A | / | 0.628 | |
| 3w0y | DS4 | Vitamin D3 receptor | / | 0.627 | |
| 4fhi | 0S4 | Vitamin D3 receptor A | / | 0.627 | |
| 1db1 | VDX | Vitamin D3 receptor | / | 0.626 | |
| 3w0g | W07 | Vitamin D3 receptor | / | 0.625 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.624 | |
| 3vrw | YS5 | Vitamin D3 receptor | / | 0.623 | |
| 3w0j | T08 | Vitamin D3 receptor | / | 0.623 | |
| 2hb8 | MVD | Vitamin D3 receptor | / | 0.620 | |
| 2zl9 | VDA | Vitamin D3 receptor | / | 0.619 | |
| 2zla | VDB | Vitamin D3 receptor | / | 0.618 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.617 | |
| 3vtb | TKA | Vitamin D3 receptor | / | 0.616 | |
| 4rup | H97 | Vitamin D3 receptor A | / | 0.616 | |
| 1ie8 | KH1 | Vitamin D3 receptor | / | 0.615 | |
| 2has | C3O | Vitamin D3 receptor | / | 0.614 | |
| 3w5q | 3KL | Vitamin D3 receptor | / | 0.614 | |
| 3w0a | DS5 | Vitamin D3 receptor | / | 0.611 | |
| 3vrv | YSD | Vitamin D3 receptor | / | 0.609 | |
| 3w0i | O11 | Vitamin D3 receptor | / | 0.607 | |
| 4ruo | BIV | Vitamin D3 receptor A | / | 0.607 | |
| 2hc4 | VDX | Vitamin D3 receptor A | / | 0.606 | |
| 2o4j | VD4 | Vitamin D3 receptor | / | 0.606 | |
| 2ham | C33 | Vitamin D3 receptor | / | 0.605 | |
| 1s0z | EB1 | Vitamin D3 receptor | / | 0.604 | |
| 1ie9 | VDX | Vitamin D3 receptor | / | 0.603 | |
| 3vrt | YS2 | Vitamin D3 receptor | / | 0.600 | |
| 4ruj | VDX | Vitamin D3 receptor A | / | 0.600 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.599 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.593 | |
| 4g20 | 484 | Vitamin D3 receptor A | / | 0.593 | |
| 3m7r | VDX | Vitamin D3 receptor | / | 0.592 | |
| 3vt4 | 5YI | Vitamin D3 receptor | / | 0.591 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.590 | |
| 3w0c | 6DS | Vitamin D3 receptor | / | 0.589 | |
| 3vru | YS3 | Vitamin D3 receptor | / | 0.586 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.576 | |
| 1sn0 | T44 | Transthyretin | / | 0.462 | |
| 2zb4 | 5OP | Prostaglandin reductase 2 | 1.3.1.48 | 0.460 | |
| 2q9f | C3S | Cholesterol 24-hydroxylase | / | 0.459 | |
| 1p8d | CO1 | Oxysterols receptor LXR-beta | / | 0.454 | |
| 1rf9 | DBR | Camphor 5-monooxygenase | 1.14.15.1 | 0.453 | |
| 2acw | UPG | Glycosyltransferase | / | 0.453 | |
| 3bej | MUF | Bile acid receptor | / | 0.453 | |
| 3mdv | CL6 | Cholesterol 24-hydroxylase | / | 0.452 | |
| 4j6c | STR | Cytochrome P450 monooxygenase | / | 0.451 | |
| 4l8u | 9AZ | Serum albumin | / | 0.451 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.450 | |
| 1l2j | ETC | Estrogen receptor beta | / | 0.450 | |
| 1osv | CHC | Bile acid receptor | / | 0.450 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.450 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.447 | |
| 1re9 | DSO | Camphor 5-monooxygenase | 1.14.15.1 | 0.447 | |
| 4j6d | TES | Cytochrome P450 monooxygenase | / | 0.447 | |
| 3sgx | 0FW | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) | 2.5.1.31 | 0.446 | |
| 4enh | FVX | Cholesterol 24-hydroxylase | / | 0.446 | |
| 4wdb | 2AM | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.446 | |
| 4en4 | ATP | Pyridoxal kinase | 2.7.1.35 | 0.445 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.444 | |
| 1upw | 444 | Oxysterols receptor LXR-beta | / | 0.444 | |
| 4ez8 | DHF | Thymidylate synthase | 2.1.1.45 | 0.444 | |
| 2z3u | CRR | Cytochrome P450 | / | 0.443 | |
| 3fco | IIG | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.443 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.443 | |
| 4bb6 | HD1 | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.443 | |
| 4j03 | FVS | Bifunctional epoxide hydrolase 2 | 3.1.3.76 | 0.443 | |
| 4nky | 3QZ | Steroid 17-alpha-hydroxylase/17,20 lyase | / | 0.443 | |
| 4tuv | CPZ | Cytochrome P450 119 | 1.14 | 0.443 | |
| 1iyz | NDP | Probable quinone oxidoreductase | / | 0.442 | |
| 1xuo | LA1 | Integrin alpha-L | / | 0.442 | |
| 3p6p | A6B | Camphor 5-monooxygenase | 1.14.15.1 | 0.442 | |
| 1f5f | DHT | Sex hormone-binding globulin | / | 0.441 | |
| 1fp2 | HMO | Isoflavone-7-O-methyltransferase 8 | 2.1.1.150 | 0.441 | |
| 1jio | DEB | 6-deoxyerythronolide B hydroxylase | / | 0.441 | |
| 3nr4 | PYV | Abscisic acid receptor PYL2 | / | 0.441 | |
| 2i4j | DRJ | Peroxisome proliferator-activated receptor gamma | / | 0.440 | |
| 2z97 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.440 | |
| 3czr | 3CZ | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.440 | |
| 4g2i | 0VQ | Vitamin D3 receptor | / | 0.440 | |
| 4l9q | 9TP | Serum albumin | / | 0.440 |