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 |
|---|---|---|---|
| 3vrw | YS5 | Vitamin D3 receptor |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 3vrw | YS5 | Vitamin D3 receptor | / | 1.000 | |
| 3vru | YS3 | Vitamin D3 receptor | / | 0.713 | |
| 3vrv | YSD | Vitamin D3 receptor | / | 0.683 | |
| 1rk3 | VDX | Vitamin D3 receptor | / | 0.661 | |
| 3w5r | LOA | Vitamin D3 receptor | / | 0.656 | |
| 3vt4 | 5YI | Vitamin D3 receptor | / | 0.647 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.646 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.645 | |
| 1rkh | VD2 | Vitamin D3 receptor | / | 0.644 | |
| 2o4r | VD5 | Vitamin D3 receptor | / | 0.644 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.641 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.639 | |
| 2zl9 | VDA | Vitamin D3 receptor | / | 0.637 | |
| 2zlc | VDX | Vitamin D3 receptor | / | 0.636 | |
| 4rup | H97 | Vitamin D3 receptor A | / | 0.635 | |
| 2ham | C33 | Vitamin D3 receptor | / | 0.634 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.633 | |
| 1rkg | VD1 | Vitamin D3 receptor | / | 0.632 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.631 | |
| 2has | C3O | Vitamin D3 receptor | / | 0.630 | |
| 1s19 | MC9 | Vitamin D3 receptor | / | 0.629 | |
| 1txi | TX5 | Vitamin D3 receptor | / | 0.629 | |
| 3vt6 | 5YI | Vitamin D3 receptor | / | 0.629 | |
| 3a78 | 3EV | Vitamin D3 receptor | / | 0.628 | |
| 3w0j | T08 | Vitamin D3 receptor | / | 0.628 | |
| 1ie8 | KH1 | Vitamin D3 receptor | / | 0.627 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.626 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.625 | |
| 1rjk | VDZ | Vitamin D3 receptor | / | 0.624 | |
| 3vt3 | VDX | Vitamin D3 receptor | / | 0.624 | |
| 2zla | VDB | Vitamin D3 receptor | / | 0.622 | |
| 1db1 | VDX | Vitamin D3 receptor | / | 0.620 | |
| 4g1y | 0VO | Vitamin D3 receptor A | / | 0.620 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.619 | |
| 2hb8 | MVD | Vitamin D3 receptor | / | 0.617 | |
| 4ruo | BIV | Vitamin D3 receptor A | / | 0.617 | |
| 4g1d | 0VK | Vitamin D3 receptor A | / | 0.615 | |
| 4g21 | 0VP | Vitamin D3 receptor A | / | 0.613 | |
| 3w0a | DS5 | Vitamin D3 receptor | / | 0.612 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.611 | |
| 3dr1 | C5D | Vitamin D3 receptor A | / | 0.609 | |
| 1s0z | EB1 | Vitamin D3 receptor | / | 0.608 | |
| 3w0g | W07 | Vitamin D3 receptor | / | 0.605 | |
| 4itf | TFY | Vitamin D3 receptor | / | 0.605 | |
| 3kpz | ZNE | Vitamin D3 receptor | / | 0.604 | |
| 4fhi | 0S4 | Vitamin D3 receptor A | / | 0.604 | |
| 2o4j | VD4 | Vitamin D3 receptor | / | 0.603 | |
| 2har | OCC | Vitamin D3 receptor | / | 0.602 | |
| 3w0i | O11 | Vitamin D3 receptor | / | 0.601 | |
| 3w0y | DS4 | Vitamin D3 receptor | / | 0.596 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.595 | |
| 2hc4 | VDX | Vitamin D3 receptor A | / | 0.593 | |
| 4g2h | 0VQ | Vitamin D3 receptor A | / | 0.593 | |
| 2hbh | XE4 | Vitamin D3 receptor A | / | 0.590 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.590 | |
| 3w0h | W12 | Vitamin D3 receptor | / | 0.590 | |
| 3vrt | YS2 | Vitamin D3 receptor | / | 0.589 | |
| 3vtb | TKA | Vitamin D3 receptor | / | 0.587 | |
| 4g20 | 484 | Vitamin D3 receptor A | / | 0.585 | |
| 1ie9 | VDX | Vitamin D3 receptor | / | 0.583 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.581 | |
| 4ruj | VDX | Vitamin D3 receptor A | / | 0.580 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.578 | |
| 3w5t | LHP | Vitamin D3 receptor | / | 0.577 | |
| 4q0a | 4OA | Vitamin D3 receptor A | / | 0.574 | |
| 3w5p | 4OA | Vitamin D3 receptor | / | 0.573 | |
| 3m7r | VDX | Vitamin D3 receptor | / | 0.560 | |
| 3w0c | 6DS | Vitamin D3 receptor | / | 0.549 | |
| 3w5q | 3KL | Vitamin D3 receptor | / | 0.528 | |
| 1lco | PPY | Cytochrome b2, mitochondrial | 1.1.2.3 | 0.459 | |
| 2q9f | C3S | Cholesterol 24-hydroxylase | / | 0.459 | |
| 3mdv | CL6 | Cholesterol 24-hydroxylase | / | 0.458 | |
| 2jn3 | JN3 | Fatty acid-binding protein, liver | / | 0.457 | |
| 3qm4 | PN0 | Cytochrome P450 2D6 | / | 0.453 | |
| 2q59 | 240 | Peroxisome proliferator-activated receptor gamma | / | 0.452 | |
| 2i4j | DRJ | Peroxisome proliferator-activated receptor gamma | / | 0.451 | |
| 5cp4 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.450 | |
| 2z97 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.446 | |
| 2ev9 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.445 | |
| 1fp2 | HMO | Isoflavone-7-O-methyltransferase 8 | 2.1.1.150 | 0.444 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.443 | |
| 4l4c | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.443 | |
| 2cib | CM6 | Lanosterol 14-alpha demethylase | 1.14.13.70 | 0.442 | |
| 2i4p | DRH | Peroxisome proliferator-activated receptor gamma | / | 0.441 | |
| 3fco | IIG | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.441 | |
| 3g4i | D71 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.441 | |
| 3gl2 | D3M | DdmC | / | 0.441 | |
| 3ruk | AER | Steroid 17-alpha-hydroxylase/17,20 lyase | / | 0.441 | |
| 4r20 | AER | Cytochrome P450 family 17 polypeptide 2 | / | 0.440 |