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 |
|---|---|---|---|
| 3w5q | 3KL | Vitamin D3 receptor |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3w5q | 3KL | Vitamin D3 receptor | / | 1.000 | |
| 3w5p | 4OA | Vitamin D3 receptor | / | 0.746 | |
| 3vt6 | 5YI | Vitamin D3 receptor | / | 0.672 | |
| 4q0a | 4OA | Vitamin D3 receptor A | / | 0.650 | |
| 3w5r | LOA | Vitamin D3 receptor | / | 0.640 | |
| 2zlc | VDX | Vitamin D3 receptor | / | 0.639 | |
| 3w0g | W07 | Vitamin D3 receptor | / | 0.637 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.632 | |
| 1txi | TX5 | Vitamin D3 receptor | / | 0.630 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.630 | |
| 4itf | TFY | Vitamin D3 receptor | / | 0.628 | |
| 3w5t | LHP | Vitamin D3 receptor | / | 0.627 | |
| 4rup | H97 | Vitamin D3 receptor A | / | 0.627 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.626 | |
| 4fhi | 0S4 | Vitamin D3 receptor A | / | 0.626 | |
| 1s19 | MC9 | Vitamin D3 receptor | / | 0.624 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.622 | |
| 4ia2 | BIV | Vitamin D3 receptor A | / | 0.620 | |
| 2zl9 | VDA | Vitamin D3 receptor | / | 0.619 | |
| 2o4r | VD5 | Vitamin D3 receptor | / | 0.615 | |
| 3dr1 | C5D | Vitamin D3 receptor A | / | 0.614 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.614 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.613 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.612 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.611 | |
| 2hc4 | VDX | Vitamin D3 receptor A | / | 0.609 | |
| 3kpz | ZNE | Vitamin D3 receptor | / | 0.609 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.609 | |
| 2zla | VDB | Vitamin D3 receptor | / | 0.608 | |
| 4g2h | 0VQ | Vitamin D3 receptor A | / | 0.608 | |
| 1rk3 | VDX | Vitamin D3 receptor | / | 0.607 | |
| 1s0z | EB1 | Vitamin D3 receptor | / | 0.607 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.607 | |
| 4g1d | 0VK | Vitamin D3 receptor A | / | 0.607 | |
| 4ruo | BIV | Vitamin D3 receptor A | / | 0.607 | |
| 2ham | C33 | Vitamin D3 receptor | / | 0.606 | |
| 2o4j | VD4 | Vitamin D3 receptor | / | 0.606 | |
| 3w0h | W12 | Vitamin D3 receptor | / | 0.606 | |
| 2has | C3O | Vitamin D3 receptor | / | 0.605 | |
| 2hbh | XE4 | Vitamin D3 receptor A | / | 0.605 | |
| 1ie8 | KH1 | Vitamin D3 receptor | / | 0.604 | |
| 4g20 | 484 | Vitamin D3 receptor A | / | 0.602 | |
| 2hb8 | MVD | Vitamin D3 receptor | / | 0.601 | |
| 3w0a | DS5 | Vitamin D3 receptor | / | 0.601 | |
| 4g21 | 0VP | Vitamin D3 receptor A | / | 0.601 | |
| 3vru | YS3 | Vitamin D3 receptor | / | 0.600 | |
| 3w0y | DS4 | Vitamin D3 receptor | / | 0.600 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.600 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.599 | |
| 3a78 | 3EV | Vitamin D3 receptor | / | 0.598 | |
| 3vrv | YSD | Vitamin D3 receptor | / | 0.598 | |
| 3vrw | YS5 | Vitamin D3 receptor | / | 0.598 | |
| 1db1 | VDX | Vitamin D3 receptor | / | 0.597 | |
| 3vt3 | VDX | Vitamin D3 receptor | / | 0.596 | |
| 2har | OCC | Vitamin D3 receptor | / | 0.593 | |
| 4ruj | VDX | Vitamin D3 receptor A | / | 0.592 | |
| 1rkg | VD1 | Vitamin D3 receptor | / | 0.588 | |
| 1rkh | VD2 | Vitamin D3 receptor | / | 0.587 | |
| 4g1y | 0VO | Vitamin D3 receptor A | / | 0.587 | |
| 3w0j | T08 | Vitamin D3 receptor | / | 0.585 | |
| 1ie9 | VDX | Vitamin D3 receptor | / | 0.582 | |
| 3vtb | TKA | Vitamin D3 receptor | / | 0.573 | |
| 3w0c | 6DS | Vitamin D3 receptor | / | 0.572 | |
| 1rjk | VDZ | Vitamin D3 receptor | / | 0.571 | |
| 3m7r | VDX | Vitamin D3 receptor | / | 0.568 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.564 | |
| 3w0i | O11 | Vitamin D3 receptor | / | 0.560 | |
| 3vt4 | 5YI | Vitamin D3 receptor | / | 0.558 | |
| 3vrt | YS2 | Vitamin D3 receptor | / | 0.551 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.519 | |
| 4g2i | 0VQ | Vitamin D3 receptor | / | 0.495 | |
| 1y60 | H4M | 5,6,7,8-tetrahydromethanopterin hydro-lyase | 4.2.1.147 | 0.476 | |
| 3fco | IIG | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.475 | |
| 2zb4 | 5OP | Prostaglandin reductase 2 | 1.3.1.48 | 0.466 | |
| 4hfr | 14M | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.465 | |
| 1vrw | NAI | Enoyl-ACP reductase | / | 0.454 | |
| 3bej | MUF | Bile acid receptor | / | 0.454 | |
| 3czr | 3CZ | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.452 | |
| 1phg | MYT | Camphor 5-monooxygenase | 1.14.15.1 | 0.451 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.451 | |
| 2nq8 | ZID | Enoyl-ACP reductase | / | 0.451 | |
| 3g4i | D71 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.450 | |
| 5cb3 | APR | O-acetyl-ADP-ribose deacetylase | / | 0.450 | |
| 4cd2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 4l8u | 9AZ | Serum albumin | / | 0.448 | |
| 4wa9 | AXI | Tyrosine-protein kinase ABL1 | 2.7.10.2 | 0.448 | |
| 2azz | TCH | Phospholipase A2, major isoenzyme | 3.1.1.4 | 0.447 | |
| 4nb6 | 444 | Nuclear receptor ROR-gamma | / | 0.447 | |
| 3vsp | EK8 | Peroxisome proliferator-activated receptor gamma | / | 0.446 | |
| 1guf | NDP | Enoyl-[acyl-carrier-protein] reductase 1, mitochondrial | 1.3.1.10 | 0.445 | |
| 1iyz | NDP | Probable quinone oxidoreductase | / | 0.445 | |
| 2q2q | NAD | Beta-D-hydroxybutyrate dehydrogenase | / | 0.444 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.443 | |
| 2w4q | CBW | Prostaglandin reductase 2 | 1.3.1.48 | 0.443 | |
| 3tqh | NDP | Quinone oxidoreductase | / | 0.443 | |
| 1nq7 | ARL | Nuclear receptor ROR-beta | / | 0.442 | |
| 3mnr | SD1 | Heat shock protein HSP 90-alpha | / | 0.442 | |
| 2ath | 3EA | Peroxisome proliferator-activated receptor gamma | / | 0.441 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.441 | |
| 2tps | TPS | Thiamine-phosphate synthase | / | 0.441 | |
| 3byz | H11 | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.441 | |
| 4nie | NBH | Nuclear receptor ROR-gamma | / | 0.440 | |
| 4q73 | FAD | Bifunctional protein PutA | / | 0.440 | |
| 5d7q | 4I5 | NAD-dependent protein deacetylase sirtuin-2 | 3.5.1 | 0.440 |