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 |
|---|---|---|---|
| 1rk3 | VDX | Vitamin D3 receptor |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1rk3 | VDX | Vitamin D3 receptor | / | 1.000 | |
| 3vrv | YSD | Vitamin D3 receptor | / | 0.819 | |
| 1rkg | VD1 | Vitamin D3 receptor | / | 0.807 | |
| 1rjk | VDZ | Vitamin D3 receptor | / | 0.769 | |
| 3vru | YS3 | Vitamin D3 receptor | / | 0.741 | |
| 3vrw | YS5 | Vitamin D3 receptor | / | 0.708 | |
| 1db1 | VDX | Vitamin D3 receptor | / | 0.693 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.683 | |
| 1txi | TX5 | Vitamin D3 receptor | / | 0.682 | |
| 2zl9 | VDA | Vitamin D3 receptor | / | 0.677 | |
| 1s19 | MC9 | Vitamin D3 receptor | / | 0.675 | |
| 2hb8 | MVD | Vitamin D3 receptor | / | 0.672 | |
| 2o4r | VD5 | Vitamin D3 receptor | / | 0.669 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.669 | |
| 2har | OCC | Vitamin D3 receptor | / | 0.667 | |
| 3w0j | T08 | Vitamin D3 receptor | / | 0.663 | |
| 2zlc | VDX | Vitamin D3 receptor | / | 0.660 | |
| 4itf | TFY | Vitamin D3 receptor | / | 0.659 | |
| 1ie9 | VDX | Vitamin D3 receptor | / | 0.657 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.654 | |
| 3kpz | ZNE | Vitamin D3 receptor | / | 0.653 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.653 | |
| 2zla | VDB | Vitamin D3 receptor | / | 0.651 | |
| 4g20 | 484 | Vitamin D3 receptor A | / | 0.651 | |
| 3a78 | 3EV | Vitamin D3 receptor | / | 0.649 | |
| 3vtb | TKA | Vitamin D3 receptor | / | 0.649 | |
| 4g1d | 0VK | Vitamin D3 receptor A | / | 0.649 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.649 | |
| 2ham | C33 | Vitamin D3 receptor | / | 0.648 | |
| 2has | C3O | Vitamin D3 receptor | / | 0.646 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.645 | |
| 3vt6 | 5YI | Vitamin D3 receptor | / | 0.644 | |
| 3w0a | DS5 | Vitamin D3 receptor | / | 0.643 | |
| 3vt3 | VDX | Vitamin D3 receptor | / | 0.642 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.642 | |
| 4fhi | 0S4 | Vitamin D3 receptor A | / | 0.642 | |
| 4ia2 | BIV | Vitamin D3 receptor A | / | 0.641 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.640 | |
| 4g21 | 0VP | Vitamin D3 receptor A | / | 0.640 | |
| 3vrt | YS2 | Vitamin D3 receptor | / | 0.639 | |
| 4rup | H97 | Vitamin D3 receptor A | / | 0.639 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.638 | |
| 3dr1 | C5D | Vitamin D3 receptor A | / | 0.637 | |
| 3m7r | VDX | Vitamin D3 receptor | / | 0.637 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.636 | |
| 1ie8 | KH1 | Vitamin D3 receptor | / | 0.634 | |
| 2hc4 | VDX | Vitamin D3 receptor A | / | 0.633 | |
| 1rkh | VD2 | Vitamin D3 receptor | / | 0.631 | |
| 4ruo | BIV | Vitamin D3 receptor A | / | 0.629 | |
| 2hbh | XE4 | Vitamin D3 receptor A | / | 0.628 | |
| 3w0y | DS4 | Vitamin D3 receptor | / | 0.628 | |
| 3vt4 | 5YI | Vitamin D3 receptor | / | 0.627 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.626 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.625 | |
| 4g2h | 0VQ | Vitamin D3 receptor A | / | 0.625 | |
| 3w0g | W07 | Vitamin D3 receptor | / | 0.624 | |
| 1s0z | EB1 | Vitamin D3 receptor | / | 0.623 | |
| 3w5t | LHP | Vitamin D3 receptor | / | 0.621 | |
| 2o4j | VD4 | Vitamin D3 receptor | / | 0.620 | |
| 4g1y | 0VO | Vitamin D3 receptor A | / | 0.620 | |
| 3w0h | W12 | Vitamin D3 receptor | / | 0.615 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.612 | |
| 4q0a | 4OA | Vitamin D3 receptor A | / | 0.610 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.602 | |
| 3w0c | 6DS | Vitamin D3 receptor | / | 0.601 | |
| 3w5r | LOA | Vitamin D3 receptor | / | 0.601 | |
| 4ruj | VDX | Vitamin D3 receptor A | / | 0.601 | |
| 3w0i | O11 | Vitamin D3 receptor | / | 0.594 | |
| 3w5p | 4OA | Vitamin D3 receptor | / | 0.587 | |
| 3w5q | 3KL | Vitamin D3 receptor | / | 0.578 | |
| 4g2i | 0VQ | Vitamin D3 receptor | / | 0.497 | |
| 3czr | 3CZ | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.465 | |
| 2ntv | P1H | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.455 | |
| 2wuf | KEM | 4,5:9,10-diseco-3-hydroxy-5,9,17-trioxoandrosta-1(10),2-diene-4-oate hydrolase | 3.7.1.17 | 0.453 | |
| 1pr9 | NAP | L-xylulose reductase | 1.1.1.10 | 0.452 | |
| 4nxu | ADP | Mitochondrial dynamics protein MID51 | / | 0.452 | |
| 4nxv | GDP | Mitochondrial dynamics protein MID51 | / | 0.449 | |
| 4o71 | CPB | Bromodomain-containing protein 4 | / | 0.449 | |
| 2rbe | NDP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.448 | |
| 3fco | IIG | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.448 | |
| 4xld | BRL | Peroxisome proliferator-activated receptor gamma | / | 0.448 | |
| 1phg | MYT | Camphor 5-monooxygenase | 1.14.15.1 | 0.447 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.447 | |
| 4jib | 1L6 | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.447 | |
| 4o70 | 1QK | Bromodomain-containing protein 4 | / | 0.446 | |
| 4l9k | EHF | Serum albumin | / | 0.445 | |
| 1iyz | NDP | Probable quinone oxidoreductase | / | 0.442 | |
| 4tuv | CPZ | Cytochrome P450 119 | 1.14 | 0.442 | |
| 2y1o | T26 | UDP-N-acetylmuramoylalanine--D-glutamate ligase | 6.3.2.9 | 0.441 |