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 |
|---|---|---|---|
| 3w5p | 4OA | Vitamin D3 receptor |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3w5p | 4OA | Vitamin D3 receptor | / | 1.000 | |
| 3w5q | 3KL | Vitamin D3 receptor | / | 0.695 | |
| 3vt6 | 5YI | Vitamin D3 receptor | / | 0.652 | |
| 3w0g | W07 | Vitamin D3 receptor | / | 0.650 | |
| 3w5r | LOA | Vitamin D3 receptor | / | 0.649 | |
| 4q0a | 4OA | Vitamin D3 receptor A | / | 0.646 | |
| 3w0h | W12 | Vitamin D3 receptor | / | 0.640 | |
| 2o4r | VD5 | Vitamin D3 receptor | / | 0.637 | |
| 3vrw | YS5 | Vitamin D3 receptor | / | 0.629 | |
| 3vt4 | 5YI | Vitamin D3 receptor | / | 0.629 | |
| 2zla | VDB | Vitamin D3 receptor | / | 0.628 | |
| 4g21 | 0VP | Vitamin D3 receptor A | / | 0.626 | |
| 2zlc | VDX | Vitamin D3 receptor | / | 0.622 | |
| 3vt3 | VDX | Vitamin D3 receptor | / | 0.622 | |
| 3w5t | LHP | Vitamin D3 receptor | / | 0.622 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.621 | |
| 1txi | TX5 | Vitamin D3 receptor | / | 0.620 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.617 | |
| 1s19 | MC9 | Vitamin D3 receptor | / | 0.615 | |
| 3vtb | TKA | Vitamin D3 receptor | / | 0.614 | |
| 4fhi | 0S4 | Vitamin D3 receptor A | / | 0.614 | |
| 4itf | TFY | Vitamin D3 receptor | / | 0.614 | |
| 4rup | H97 | Vitamin D3 receptor A | / | 0.614 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.613 | |
| 3vru | YS3 | Vitamin D3 receptor | / | 0.613 | |
| 2ham | C33 | Vitamin D3 receptor | / | 0.609 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.604 | |
| 3w0j | T08 | Vitamin D3 receptor | / | 0.604 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.604 | |
| 1rkh | VD2 | Vitamin D3 receptor | / | 0.603 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.602 | |
| 1ie8 | KH1 | Vitamin D3 receptor | / | 0.600 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.600 | |
| 3w0a | DS5 | Vitamin D3 receptor | / | 0.599 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.599 | |
| 4g2h | 0VQ | Vitamin D3 receptor A | / | 0.599 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.599 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.598 | |
| 3vrv | YSD | Vitamin D3 receptor | / | 0.598 | |
| 4ia2 | BIV | Vitamin D3 receptor A | / | 0.598 | |
| 3w0y | DS4 | Vitamin D3 receptor | / | 0.596 | |
| 1db1 | VDX | Vitamin D3 receptor | / | 0.595 | |
| 1s0z | EB1 | Vitamin D3 receptor | / | 0.595 | |
| 2hbh | XE4 | Vitamin D3 receptor A | / | 0.595 | |
| 1rk3 | VDX | Vitamin D3 receptor | / | 0.594 | |
| 4ruo | BIV | Vitamin D3 receptor A | / | 0.593 | |
| 2hc4 | VDX | Vitamin D3 receptor A | / | 0.592 | |
| 4g1d | 0VK | Vitamin D3 receptor A | / | 0.591 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.591 | |
| 2has | C3O | Vitamin D3 receptor | / | 0.590 | |
| 2o4j | VD4 | Vitamin D3 receptor | / | 0.589 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.589 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.586 | |
| 2har | OCC | Vitamin D3 receptor | / | 0.584 | |
| 3dr1 | C5D | Vitamin D3 receptor A | / | 0.583 | |
| 3kpz | ZNE | Vitamin D3 receptor | / | 0.583 | |
| 4g20 | 484 | Vitamin D3 receptor A | / | 0.583 | |
| 4g1y | 0VO | Vitamin D3 receptor A | / | 0.579 | |
| 2hb8 | MVD | Vitamin D3 receptor | / | 0.578 | |
| 2zl9 | VDA | Vitamin D3 receptor | / | 0.577 | |
| 1rkg | VD1 | Vitamin D3 receptor | / | 0.573 | |
| 3a78 | 3EV | Vitamin D3 receptor | / | 0.573 | |
| 3w0i | O11 | Vitamin D3 receptor | / | 0.572 | |
| 1ie9 | VDX | Vitamin D3 receptor | / | 0.570 | |
| 1rjk | VDZ | Vitamin D3 receptor | / | 0.570 | |
| 4ruj | VDX | Vitamin D3 receptor A | / | 0.563 | |
| 3vrt | YS2 | Vitamin D3 receptor | / | 0.562 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.561 | |
| 3w0c | 6DS | Vitamin D3 receptor | / | 0.553 | |
| 3m7r | VDX | Vitamin D3 receptor | / | 0.547 | |
| 4g2i | 0VQ | Vitamin D3 receptor | / | 0.472 | |
| 2nnh | REA | Cytochrome P450 2C8 | / | 0.469 | |
| 4o70 | 1QK | Bromodomain-containing protein 4 | / | 0.465 | |
| 2f4b | EHA | Peroxisome proliferator-activated receptor gamma | / | 0.462 | |
| 2ath | 3EA | Peroxisome proliferator-activated receptor gamma | / | 0.460 | |
| 4nie | NBH | Nuclear receptor ROR-gamma | / | 0.458 | |
| 3fco | IIG | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.453 | |
| 4l9k | EHF | Serum albumin | / | 0.453 | |
| 1k74 | 544 | Peroxisome proliferator-activated receptor gamma | / | 0.451 | |
| 4nxu | ADP | Mitochondrial dynamics protein MID51 | / | 0.450 | |
| 2y1o | T26 | UDP-N-acetylmuramoylalanine--D-glutamate ligase | 6.3.2.9 | 0.449 | |
| 3bej | MUF | Bile acid receptor | / | 0.449 | |
| 4hfr | 14M | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.448 | |
| 2om9 | AJA | Peroxisome proliferator-activated receptor gamma | / | 0.447 | |
| 3w2e | NAD | NADH-cytochrome b5 reductase 3 | 1.6.2.2 | 0.447 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.447 | |
| 2pr2 | DG1 | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.445 | |
| 4nxv | GDP | Mitochondrial dynamics protein MID51 | / | 0.443 | |
| 4o1m | NAD | Enoyl-acyl carrier reductase | / | 0.443 | |
| 1zgy | BRL | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 2a1t | FAD | Medium-chain specific acyl-CoA dehydrogenase, mitochondrial | 1.3.8.7 | 0.441 | |
| 2q8s | L92 | Peroxisome proliferator-activated receptor gamma | / | 0.441 | |
| 3vsp | EK8 | Peroxisome proliferator-activated receptor gamma | / | 0.441 | |
| 5itz | LOC | Tubulin beta-2B chain | / | 0.441 | |
| 2ykj | YKJ | Heat shock protein HSP 90-alpha | / | 0.440 | |
| 4b7s | QLE | Cytochrome P450 monooxygenase PikC | / | 0.440 |