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 |
|---|---|---|---|
| 1db1 | VDX | Vitamin D3 receptor |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1db1 | VDX | Vitamin D3 receptor | / | 1.000 | |
| 1txi | TX5 | Vitamin D3 receptor | / | 0.842 | |
| 2ham | C33 | Vitamin D3 receptor | / | 0.790 | |
| 2hb8 | MVD | Vitamin D3 receptor | / | 0.771 | |
| 1s19 | MC9 | Vitamin D3 receptor | / | 0.741 | |
| 1ie8 | KH1 | Vitamin D3 receptor | / | 0.735 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.719 | |
| 3m7r | VDX | Vitamin D3 receptor | / | 0.709 | |
| 1rk3 | VDX | Vitamin D3 receptor | / | 0.695 | |
| 2has | C3O | Vitamin D3 receptor | / | 0.691 | |
| 1rkg | VD1 | Vitamin D3 receptor | / | 0.680 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.680 | |
| 2har | OCC | Vitamin D3 receptor | / | 0.677 | |
| 2zlc | VDX | Vitamin D3 receptor | / | 0.677 | |
| 3w0y | DS4 | Vitamin D3 receptor | / | 0.672 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.672 | |
| 3w0j | T08 | Vitamin D3 receptor | / | 0.671 | |
| 2zl9 | VDA | Vitamin D3 receptor | / | 0.668 | |
| 1ie9 | VDX | Vitamin D3 receptor | / | 0.667 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.664 | |
| 1s0z | EB1 | Vitamin D3 receptor | / | 0.662 | |
| 3a78 | 3EV | Vitamin D3 receptor | / | 0.660 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.660 | |
| 4itf | TFY | Vitamin D3 receptor | / | 0.660 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.659 | |
| 4g1d | 0VK | Vitamin D3 receptor A | / | 0.659 | |
| 1rkh | VD2 | Vitamin D3 receptor | / | 0.658 | |
| 2o4r | VD5 | Vitamin D3 receptor | / | 0.658 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.656 | |
| 3dr1 | C5D | Vitamin D3 receptor A | / | 0.655 | |
| 3vrv | YSD | Vitamin D3 receptor | / | 0.655 | |
| 3vru | YS3 | Vitamin D3 receptor | / | 0.653 | |
| 3w0a | DS5 | Vitamin D3 receptor | / | 0.651 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.650 | |
| 3vrw | YS5 | Vitamin D3 receptor | / | 0.650 | |
| 4g2h | 0VQ | Vitamin D3 receptor A | / | 0.650 | |
| 3kpz | ZNE | Vitamin D3 receptor | / | 0.646 | |
| 4g1y | 0VO | Vitamin D3 receptor A | / | 0.646 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.644 | |
| 4rup | H97 | Vitamin D3 receptor A | / | 0.644 | |
| 3vt6 | 5YI | Vitamin D3 receptor | / | 0.642 | |
| 2hc4 | VDX | Vitamin D3 receptor A | / | 0.641 | |
| 2zla | VDB | Vitamin D3 receptor | / | 0.641 | |
| 4ruo | BIV | Vitamin D3 receptor A | / | 0.641 | |
| 2hbh | XE4 | Vitamin D3 receptor A | / | 0.639 | |
| 4fhi | 0S4 | Vitamin D3 receptor A | / | 0.638 | |
| 3vtb | TKA | Vitamin D3 receptor | / | 0.636 | |
| 3vt3 | VDX | Vitamin D3 receptor | / | 0.635 | |
| 2o4j | VD4 | Vitamin D3 receptor | / | 0.634 | |
| 4ia2 | BIV | Vitamin D3 receptor A | / | 0.634 | |
| 4g20 | 484 | Vitamin D3 receptor A | / | 0.632 | |
| 3w5r | LOA | Vitamin D3 receptor | / | 0.628 | |
| 3vt4 | 5YI | Vitamin D3 receptor | / | 0.627 | |
| 4g21 | 0VP | Vitamin D3 receptor A | / | 0.625 | |
| 3w0g | W07 | Vitamin D3 receptor | / | 0.621 | |
| 3w0h | W12 | Vitamin D3 receptor | / | 0.620 | |
| 1rjk | VDZ | Vitamin D3 receptor | / | 0.616 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.614 | |
| 3vrt | YS2 | Vitamin D3 receptor | / | 0.612 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.611 | |
| 3w5t | LHP | Vitamin D3 receptor | / | 0.610 | |
| 4ruj | VDX | Vitamin D3 receptor A | / | 0.606 | |
| 3w0c | 6DS | Vitamin D3 receptor | / | 0.603 | |
| 3w5p | 4OA | Vitamin D3 receptor | / | 0.602 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.591 | |
| 3w0i | O11 | Vitamin D3 receptor | / | 0.591 | |
| 4q0a | 4OA | Vitamin D3 receptor A | / | 0.589 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.579 | |
| 3w5q | 3KL | Vitamin D3 receptor | / | 0.572 | |
| 4g2i | 0VQ | Vitamin D3 receptor | / | 0.483 | |
| 3czr | 3CZ | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.470 | |
| 4jib | 1L6 | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.470 | |
| 3fco | IIG | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.462 | |
| 4l9k | EHF | Serum albumin | / | 0.458 | |
| 2rbe | NDP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.452 | |
| 3up0 | D7S | aceDAF-12 | / | 0.452 | |
| 2ntv | P1H | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.450 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.446 | |
| 2ath | 3EA | Peroxisome proliferator-activated receptor gamma | / | 0.446 | |
| 4tuv | CPZ | Cytochrome P450 119 | 1.14 | 0.446 | |
| 2jn3 | JN3 | Fatty acid-binding protein, liver | / | 0.445 | |
| 4o70 | 1QK | Bromodomain-containing protein 4 | / | 0.445 | |
| 3d3e | D3E | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.444 | |
| 4mih | FAD | Pyranose 2-oxidase | 1.1.3.10 | 0.443 | |
| 2go4 | TUX | UDP-3-O-acyl-N-acetylglucosamine deacetylase | / | 0.442 | |
| 3d5f | L41 | Peroxisome proliferator-activated receptor delta | / | 0.442 | |
| 3zep | 1NX | Tyrosine-protein kinase JAK3 | 2.7.10.2 | 0.442 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.442 | |
| 4fjz | 4FJ | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.441 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.441 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.440 | |
| 1yb5 | NAP | Quinone oxidoreductase | 1.6.5.5 | 0.440 | |
| 2nnh | REA | Cytochrome P450 2C8 | / | 0.440 | |
| 2zyn | BCD | Periplasmic binding protein | / | 0.440 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.440 |