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 |
|---|---|---|---|
| 2hb8 | MVD | Vitamin D3 receptor |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2hb8 | MVD | Vitamin D3 receptor | / | 1.000 | |
| 2ham | C33 | Vitamin D3 receptor | / | 0.867 | |
| 2has | C3O | Vitamin D3 receptor | / | 0.814 | |
| 1db1 | VDX | Vitamin D3 receptor | / | 0.797 | |
| 1txi | TX5 | Vitamin D3 receptor | / | 0.793 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.749 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.748 | |
| 3a78 | 3EV | Vitamin D3 receptor | / | 0.741 | |
| 1s19 | MC9 | Vitamin D3 receptor | / | 0.710 | |
| 3w0y | DS4 | Vitamin D3 receptor | / | 0.710 | |
| 1rkg | VD1 | Vitamin D3 receptor | / | 0.706 | |
| 3kpz | ZNE | Vitamin D3 receptor | / | 0.697 | |
| 3m7r | VDX | Vitamin D3 receptor | / | 0.689 | |
| 3vt6 | 5YI | Vitamin D3 receptor | / | 0.683 | |
| 2zlc | VDX | Vitamin D3 receptor | / | 0.682 | |
| 1rk3 | VDX | Vitamin D3 receptor | / | 0.681 | |
| 2zl9 | VDA | Vitamin D3 receptor | / | 0.681 | |
| 1s0z | EB1 | Vitamin D3 receptor | / | 0.679 | |
| 3w0a | DS5 | Vitamin D3 receptor | / | 0.678 | |
| 4fhi | 0S4 | Vitamin D3 receptor A | / | 0.676 | |
| 3vru | YS3 | Vitamin D3 receptor | / | 0.674 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.674 | |
| 4g1d | 0VK | Vitamin D3 receptor A | / | 0.671 | |
| 3vrv | YSD | Vitamin D3 receptor | / | 0.668 | |
| 1ie8 | KH1 | Vitamin D3 receptor | / | 0.665 | |
| 1ie9 | VDX | Vitamin D3 receptor | / | 0.665 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.665 | |
| 1rkh | VD2 | Vitamin D3 receptor | / | 0.663 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.663 | |
| 3vrw | YS5 | Vitamin D3 receptor | / | 0.662 | |
| 4g1y | 0VO | Vitamin D3 receptor A | / | 0.662 | |
| 3dr1 | C5D | Vitamin D3 receptor A | / | 0.660 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.659 | |
| 3w0j | T08 | Vitamin D3 receptor | / | 0.659 | |
| 4itf | TFY | Vitamin D3 receptor | / | 0.659 | |
| 2har | OCC | Vitamin D3 receptor | / | 0.658 | |
| 4rup | H97 | Vitamin D3 receptor A | / | 0.657 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.656 | |
| 2zla | VDB | Vitamin D3 receptor | / | 0.655 | |
| 2o4r | VD5 | Vitamin D3 receptor | / | 0.654 | |
| 4g2h | 0VQ | Vitamin D3 receptor A | / | 0.654 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.653 | |
| 2o4j | VD4 | Vitamin D3 receptor | / | 0.652 | |
| 2hbh | XE4 | Vitamin D3 receptor A | / | 0.650 | |
| 2hc4 | VDX | Vitamin D3 receptor A | / | 0.649 | |
| 3vt4 | 5YI | Vitamin D3 receptor | / | 0.649 | |
| 4g20 | 484 | Vitamin D3 receptor A | / | 0.648 | |
| 4ruo | BIV | Vitamin D3 receptor A | / | 0.648 | |
| 1rjk | VDZ | Vitamin D3 receptor | / | 0.641 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.641 | |
| 4g21 | 0VP | Vitamin D3 receptor A | / | 0.640 | |
| 3vtb | TKA | Vitamin D3 receptor | / | 0.636 | |
| 3vrt | YS2 | Vitamin D3 receptor | / | 0.630 | |
| 4ia2 | BIV | Vitamin D3 receptor A | / | 0.627 | |
| 3vt3 | VDX | Vitamin D3 receptor | / | 0.623 | |
| 3w0c | 6DS | Vitamin D3 receptor | / | 0.620 | |
| 3w0g | W07 | Vitamin D3 receptor | / | 0.620 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.618 | |
| 3w5t | LHP | Vitamin D3 receptor | / | 0.618 | |
| 3w0h | W12 | Vitamin D3 receptor | / | 0.615 | |
| 4ruj | VDX | Vitamin D3 receptor A | / | 0.615 | |
| 4q0a | 4OA | Vitamin D3 receptor A | / | 0.613 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.612 | |
| 3w5r | LOA | Vitamin D3 receptor | / | 0.610 | |
| 3w0i | O11 | Vitamin D3 receptor | / | 0.609 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.607 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.605 | |
| 3w5p | 4OA | Vitamin D3 receptor | / | 0.597 | |
| 3w5q | 3KL | Vitamin D3 receptor | / | 0.589 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.581 | |
| 4g2i | 0VQ | Vitamin D3 receptor | / | 0.503 | |
| 3p3z | P3Z | Putative cytochrome P450 | / | 0.475 | |
| 4jib | 1L6 | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.475 | |
| 3czr | 3CZ | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.472 | |
| 3bej | MUF | Bile acid receptor | / | 0.470 | |
| 3fco | IIG | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.461 | |
| 4dhy | S41 | Glucokinase | 2.7.1.2 | 0.458 | |
| 4l9k | EHF | Serum albumin | / | 0.457 | |
| 2ath | 3EA | Peroxisome proliferator-activated receptor gamma | / | 0.456 | |
| 4fjz | 4FJ | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.456 | |
| 4o71 | CPB | Bromodomain-containing protein 4 | / | 0.454 | |
| 2wuf | KEM | 4,5:9,10-diseco-3-hydroxy-5,9,17-trioxoandrosta-1(10),2-diene-4-oate hydrolase | 3.7.1.17 | 0.453 | |
| 3up0 | D7S | aceDAF-12 | / | 0.453 | |
| 2nnh | REA | Cytochrome P450 2C8 | / | 0.452 | |
| 1h69 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.451 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.449 | |
| 2hwr | DRD | Peroxisome proliferator-activated receptor gamma | / | 0.449 | |
| 2jn3 | JN3 | Fatty acid-binding protein, liver | / | 0.449 | |
| 1nq7 | ARL | Nuclear receptor ROR-beta | / | 0.448 | |
| 2vn0 | TDZ | Cytochrome P450 2C8 | / | 0.448 | |
| 3h3s | H15 | Collagen type IV alpha-3-binding protein | / | 0.448 | |
| 3zep | 1NX | Tyrosine-protein kinase JAK3 | 2.7.10.2 | 0.447 | |
| 3d3e | D3E | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.446 | |
| 1fp2 | HMO | Isoflavone-7-O-methyltransferase 8 | 2.1.1.150 | 0.445 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.445 | |
| 2f4b | EHA | Peroxisome proliferator-activated receptor gamma | / | 0.445 | |
| 3mnr | SD1 | Heat shock protein HSP 90-alpha | / | 0.445 | |
| 1jip | KTN | 6-deoxyerythronolide B hydroxylase | / | 0.444 | |
| 3zux | TCH | Transporter | / | 0.444 | |
| 4hfr | 14M | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.444 | |
| 4nkv | AER | Steroid 17-alpha-hydroxylase/17,20 lyase | / | 0.444 | |
| 4wa9 | AXI | Tyrosine-protein kinase ABL1 | 2.7.10.2 | 0.444 | |
| 1eup | ASD | 6-deoxyerythronolide B hydroxylase | / | 0.443 | |
| 1osv | CHC | Bile acid receptor | / | 0.443 | |
| 2qo6 | CHD | Fatty acid-binding protein 10-A, liver basic | / | 0.443 | |
| 1e1k | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.442 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.442 | |
| 2ntv | P1H | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.442 | |
| 3ruk | AER | Steroid 17-alpha-hydroxylase/17,20 lyase | / | 0.442 | |
| 4uyf | 73B | Bromodomain-containing protein 2 | / | 0.442 | |
| 5bt4 | 2LO | Bromodomain-containing protein 4 | / | 0.442 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.440 | |
| 2hw2 | RFP | Rifampin ADP-ribosyl transferase | / | 0.440 | |
| 3l0l | HC3 | Nuclear receptor ROR-gamma | / | 0.440 | |
| 4iar | ERM | 5-hydroxytryptamine receptor 1B | / | 0.440 |