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 |
|---|---|---|---|
| 3w0c | 6DS | Vitamin D3 receptor |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3w0c | 6DS | Vitamin D3 receptor | / | 1.000 | |
| 3kpz | ZNE | Vitamin D3 receptor | / | 0.781 | |
| 1ie9 | VDX | Vitamin D3 receptor | / | 0.777 | |
| 1s0z | EB1 | Vitamin D3 receptor | / | 0.707 | |
| 3w0a | DS5 | Vitamin D3 receptor | / | 0.705 | |
| 3m7r | VDX | Vitamin D3 receptor | / | 0.696 | |
| 2har | OCC | Vitamin D3 receptor | / | 0.694 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.680 | |
| 1txi | TX5 | Vitamin D3 receptor | / | 0.671 | |
| 1s19 | MC9 | Vitamin D3 receptor | / | 0.668 | |
| 3vt3 | VDX | Vitamin D3 receptor | / | 0.667 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.665 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.664 | |
| 4itf | TFY | Vitamin D3 receptor | / | 0.663 | |
| 2zl9 | VDA | Vitamin D3 receptor | / | 0.662 | |
| 2has | C3O | Vitamin D3 receptor | / | 0.652 | |
| 3w0j | T08 | Vitamin D3 receptor | / | 0.652 | |
| 1ie8 | KH1 | Vitamin D3 receptor | / | 0.648 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.648 | |
| 4g2h | 0VQ | Vitamin D3 receptor A | / | 0.648 | |
| 2o4r | VD5 | Vitamin D3 receptor | / | 0.645 | |
| 2zlc | VDX | Vitamin D3 receptor | / | 0.645 | |
| 4rup | H97 | Vitamin D3 receptor A | / | 0.641 | |
| 2hc4 | VDX | Vitamin D3 receptor A | / | 0.639 | |
| 2hb8 | MVD | Vitamin D3 receptor | / | 0.637 | |
| 4g1y | 0VO | Vitamin D3 receptor A | / | 0.636 | |
| 3vt4 | 5YI | Vitamin D3 receptor | / | 0.635 | |
| 3w0y | DS4 | Vitamin D3 receptor | / | 0.633 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.633 | |
| 4fhi | 0S4 | Vitamin D3 receptor A | / | 0.632 | |
| 1rkh | VD2 | Vitamin D3 receptor | / | 0.631 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.630 | |
| 3vru | YS3 | Vitamin D3 receptor | / | 0.628 | |
| 2hbh | XE4 | Vitamin D3 receptor A | / | 0.627 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.627 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.627 | |
| 3w0g | W07 | Vitamin D3 receptor | / | 0.626 | |
| 4g1d | 0VK | Vitamin D3 receptor A | / | 0.626 | |
| 1rk3 | VDX | Vitamin D3 receptor | / | 0.623 | |
| 4g21 | 0VP | Vitamin D3 receptor A | / | 0.623 | |
| 3vrt | YS2 | Vitamin D3 receptor | / | 0.620 | |
| 3vt6 | 5YI | Vitamin D3 receptor | / | 0.620 | |
| 4q0a | 4OA | Vitamin D3 receptor A | / | 0.619 | |
| 2o4j | VD4 | Vitamin D3 receptor | / | 0.618 | |
| 3dr1 | C5D | Vitamin D3 receptor A | / | 0.617 | |
| 4ruo | BIV | Vitamin D3 receptor A | / | 0.615 | |
| 1db1 | VDX | Vitamin D3 receptor | / | 0.611 | |
| 3w0h | W12 | Vitamin D3 receptor | / | 0.611 | |
| 2ham | C33 | Vitamin D3 receptor | / | 0.610 | |
| 2zla | VDB | Vitamin D3 receptor | / | 0.609 | |
| 3vrv | YSD | Vitamin D3 receptor | / | 0.608 | |
| 4ia2 | BIV | Vitamin D3 receptor A | / | 0.608 | |
| 1rkg | VD1 | Vitamin D3 receptor | / | 0.607 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.606 | |
| 3vtb | TKA | Vitamin D3 receptor | / | 0.600 | |
| 4ruj | VDX | Vitamin D3 receptor A | / | 0.598 | |
| 3w0i | O11 | Vitamin D3 receptor | / | 0.597 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.596 | |
| 1rjk | VDZ | Vitamin D3 receptor | / | 0.595 | |
| 3vrw | YS5 | Vitamin D3 receptor | / | 0.591 | |
| 3w5t | LHP | Vitamin D3 receptor | / | 0.588 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.585 | |
| 4g20 | 484 | Vitamin D3 receptor A | / | 0.584 | |
| 3w5p | 4OA | Vitamin D3 receptor | / | 0.570 | |
| 3w5r | LOA | Vitamin D3 receptor | / | 0.567 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.557 | |
| 3a78 | 3EV | Vitamin D3 receptor | / | 0.554 | |
| 3w5q | 3KL | Vitamin D3 receptor | / | 0.553 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.538 | |
| 4g2i | 0VQ | Vitamin D3 receptor | / | 0.526 | |
| 1h69 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.479 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.471 | |
| 1dxq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.463 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.459 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.457 | |
| 3fco | IIG | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.457 | |
| 3l0l | HC3 | Nuclear receptor ROR-gamma | / | 0.457 | |
| 1e1k | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.455 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.455 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.454 | |
| 5eai | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.454 | |
| 2f4b | EHA | Peroxisome proliferator-activated receptor gamma | / | 0.453 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.452 | |
| 2om9 | AJA | Peroxisome proliferator-activated receptor gamma | / | 0.449 | |
| 2oye | IM8 | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.449 | |
| 2zb4 | 5OP | Prostaglandin reductase 2 | 1.3.1.48 | 0.448 | |
| 4lcg | 1WM | UDP-3-O-acyl-N-acetylglucosamine deacetylase | / | 0.448 | |
| 2nq8 | ZID | Enoyl-ACP reductase | / | 0.447 | |
| 3flk | NAI | Tartrate dehydrogenase/decarboxylase | 1.1.1.93 | 0.446 | |
| 3p6p | A6B | Camphor 5-monooxygenase | 1.14.15.1 | 0.445 | |
| 1y60 | H4M | 5,6,7,8-tetrahydromethanopterin hydro-lyase | 4.2.1.147 | 0.444 | |
| 3p3z | P3Z | Putative cytochrome P450 | / | 0.444 | |
| 1guf | NDP | Enoyl-[acyl-carrier-protein] reductase 1, mitochondrial | 1.3.1.10 | 0.443 | |
| 1n4s | CYS_VAL_ILE_LEU_GER | Geranylgeranyl transferase type-1 subunit beta | 2.5.1.59 | 0.443 | |
| 1jip | KTN | 6-deoxyerythronolide B hydroxylase | / | 0.442 | |
| 3beg | ANP | SRSF protein kinase 1 | 2.7.11.1 | 0.442 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.442 | |
| 1fm6 | BRL | Peroxisome proliferator-activated receptor gamma | / | 0.441 | |
| 2go4 | TUX | UDP-3-O-acyl-N-acetylglucosamine deacetylase | / | 0.440 | |
| 4f9m | FCM | Peroxisome proliferator-activated receptor gamma | / | 0.440 |