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 |
|---|---|---|---|
| 3w0g | W07 | Vitamin D3 receptor |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3w0g | W07 | Vitamin D3 receptor | / | 1.000 | |
| 3vt3 | VDX | Vitamin D3 receptor | / | 0.724 | |
| 3w0j | T08 | Vitamin D3 receptor | / | 0.713 | |
| 2zlc | VDX | Vitamin D3 receptor | / | 0.703 | |
| 2zl9 | VDA | Vitamin D3 receptor | / | 0.701 | |
| 3vt4 | 5YI | Vitamin D3 receptor | / | 0.701 | |
| 3vt6 | 5YI | Vitamin D3 receptor | / | 0.690 | |
| 2zla | VDB | Vitamin D3 receptor | / | 0.680 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.674 | |
| 4g1d | 0VK | Vitamin D3 receptor A | / | 0.667 | |
| 3w0h | W12 | Vitamin D3 receptor | / | 0.657 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.657 | |
| 3vrt | YS2 | Vitamin D3 receptor | / | 0.654 | |
| 3w5p | 4OA | Vitamin D3 receptor | / | 0.653 | |
| 3w0i | O11 | Vitamin D3 receptor | / | 0.651 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.641 | |
| 1ie8 | KH1 | Vitamin D3 receptor | / | 0.640 | |
| 1s19 | MC9 | Vitamin D3 receptor | / | 0.640 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.640 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.638 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.638 | |
| 1txi | TX5 | Vitamin D3 receptor | / | 0.635 | |
| 4fhi | 0S4 | Vitamin D3 receptor A | / | 0.635 | |
| 3vrv | YSD | Vitamin D3 receptor | / | 0.634 | |
| 3vrw | YS5 | Vitamin D3 receptor | / | 0.634 | |
| 3vtb | TKA | Vitamin D3 receptor | / | 0.634 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.633 | |
| 1rk3 | VDX | Vitamin D3 receptor | / | 0.631 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.631 | |
| 4itf | TFY | Vitamin D3 receptor | / | 0.631 | |
| 3w0a | DS5 | Vitamin D3 receptor | / | 0.627 | |
| 3w5r | LOA | Vitamin D3 receptor | / | 0.626 | |
| 4g1y | 0VO | Vitamin D3 receptor A | / | 0.626 | |
| 3vru | YS3 | Vitamin D3 receptor | / | 0.625 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.623 | |
| 4ruo | BIV | Vitamin D3 receptor A | / | 0.622 | |
| 3a78 | 3EV | Vitamin D3 receptor | / | 0.620 | |
| 3kpz | ZNE | Vitamin D3 receptor | / | 0.620 | |
| 4g20 | 484 | Vitamin D3 receptor A | / | 0.620 | |
| 4g21 | 0VP | Vitamin D3 receptor A | / | 0.620 | |
| 2o4r | VD5 | Vitamin D3 receptor | / | 0.619 | |
| 1db1 | VDX | Vitamin D3 receptor | / | 0.618 | |
| 4g2h | 0VQ | Vitamin D3 receptor A | / | 0.616 | |
| 2ham | C33 | Vitamin D3 receptor | / | 0.614 | |
| 1rkh | VD2 | Vitamin D3 receptor | / | 0.613 | |
| 3dr1 | C5D | Vitamin D3 receptor A | / | 0.612 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.611 | |
| 3w0c | 6DS | Vitamin D3 receptor | / | 0.610 | |
| 3w5q | 3KL | Vitamin D3 receptor | / | 0.608 | |
| 2har | OCC | Vitamin D3 receptor | / | 0.607 | |
| 3w0y | DS4 | Vitamin D3 receptor | / | 0.606 | |
| 3w5t | LHP | Vitamin D3 receptor | / | 0.605 | |
| 1ie9 | VDX | Vitamin D3 receptor | / | 0.604 | |
| 2o4j | VD4 | Vitamin D3 receptor | / | 0.600 | |
| 2hb8 | MVD | Vitamin D3 receptor | / | 0.598 | |
| 2has | C3O | Vitamin D3 receptor | / | 0.595 | |
| 1s0z | EB1 | Vitamin D3 receptor | / | 0.594 | |
| 1rjk | VDZ | Vitamin D3 receptor | / | 0.592 | |
| 4rup | H97 | Vitamin D3 receptor A | / | 0.592 | |
| 1rkg | VD1 | Vitamin D3 receptor | / | 0.590 | |
| 2hbh | XE4 | Vitamin D3 receptor A | / | 0.590 | |
| 4ia2 | BIV | Vitamin D3 receptor A | / | 0.585 | |
| 4ruj | VDX | Vitamin D3 receptor A | / | 0.585 | |
| 2hc4 | VDX | Vitamin D3 receptor A | / | 0.578 | |
| 4q0a | 4OA | Vitamin D3 receptor A | / | 0.574 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.568 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.558 | |
| 3m7r | VDX | Vitamin D3 receptor | / | 0.554 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.554 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.547 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.482 | |
| 4g2i | 0VQ | Vitamin D3 receptor | / | 0.472 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.466 | |
| 4nxu | ADP | Mitochondrial dynamics protein MID51 | / | 0.463 | |
| 3b6z | CO7 | Enoyl reductase LovC | 1 | 0.454 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.450 | |
| 1cf3 | FAD | Glucose oxidase | 1.1.3.4 | 0.448 | |
| 2jn3 | JN3 | Fatty acid-binding protein, liver | / | 0.448 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.448 | |
| 3b70 | NAP | Enoyl reductase LovC | 1 | 0.447 | |
| 4uym | VOR | 14-alpha sterol demethylase Cyp51B | / | 0.447 | |
| 1h69 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.445 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.445 | |
| 2bel | CBO | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.445 | |
| 2p5u | NAD | UDP-glucose 4-epimerase | / | 0.445 | |
| 4iah | 1DX | Alr2278 protein | / | 0.445 | |
| 3k4n | FAD | Pyranose 2-oxidase | / | 0.444 | |
| 3qm4 | PN0 | Cytochrome P450 2D6 | / | 0.444 | |
| 4o70 | 1QK | Bromodomain-containing protein 4 | / | 0.444 | |
| 1osv | CHC | Bile acid receptor | / | 0.442 | |
| 4hfr | 14M | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.442 | |
| 4jlj | 1NM | Deoxycytidine kinase | 2.7.1.74 | 0.442 | |
| 5k2b | ZMA | Adenosine receptor A2a | / | 0.442 | |
| 2pr2 | DG1 | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.441 | |
| 2om9 | AJA | Peroxisome proliferator-activated receptor gamma | / | 0.440 | |
| 4l9k | EHF | Serum albumin | / | 0.440 |