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 |
|---|---|---|---|
| 2hbh | XE4 | Vitamin D3 receptor A |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2hbh | XE4 | Vitamin D3 receptor A | / | 1.000 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.824 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.785 | |
| 4g21 | 0VP | Vitamin D3 receptor A | / | 0.776 | |
| 4g2h | 0VQ | Vitamin D3 receptor A | / | 0.757 | |
| 3dr1 | C5D | Vitamin D3 receptor A | / | 0.756 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.755 | |
| 2hc4 | VDX | Vitamin D3 receptor A | / | 0.744 | |
| 4g1y | 0VO | Vitamin D3 receptor A | / | 0.744 | |
| 4rup | H97 | Vitamin D3 receptor A | / | 0.739 | |
| 4ia2 | BIV | Vitamin D3 receptor A | / | 0.727 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.710 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.708 | |
| 4g1d | 0VK | Vitamin D3 receptor A | / | 0.706 | |
| 2zlc | VDX | Vitamin D3 receptor | / | 0.698 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.680 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.678 | |
| 4ruo | BIV | Vitamin D3 receptor A | / | 0.674 | |
| 2har | OCC | Vitamin D3 receptor | / | 0.673 | |
| 2hb8 | MVD | Vitamin D3 receptor | / | 0.672 | |
| 4fhi | 0S4 | Vitamin D3 receptor A | / | 0.669 | |
| 1txi | TX5 | Vitamin D3 receptor | / | 0.667 | |
| 3a78 | 3EV | Vitamin D3 receptor | / | 0.665 | |
| 1s19 | MC9 | Vitamin D3 receptor | / | 0.663 | |
| 2zl9 | VDA | Vitamin D3 receptor | / | 0.662 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.661 | |
| 3vru | YS3 | Vitamin D3 receptor | / | 0.659 | |
| 3vt3 | VDX | Vitamin D3 receptor | / | 0.659 | |
| 1rk3 | VDX | Vitamin D3 receptor | / | 0.658 | |
| 3kpz | ZNE | Vitamin D3 receptor | / | 0.656 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.655 | |
| 3vt6 | 5YI | Vitamin D3 receptor | / | 0.655 | |
| 4itf | TFY | Vitamin D3 receptor | / | 0.655 | |
| 1db1 | VDX | Vitamin D3 receptor | / | 0.654 | |
| 2ham | C33 | Vitamin D3 receptor | / | 0.652 | |
| 2o4r | VD5 | Vitamin D3 receptor | / | 0.652 | |
| 3vrw | YS5 | Vitamin D3 receptor | / | 0.648 | |
| 3w0a | DS5 | Vitamin D3 receptor | / | 0.648 | |
| 3w0j | T08 | Vitamin D3 receptor | / | 0.648 | |
| 1rkh | VD2 | Vitamin D3 receptor | / | 0.647 | |
| 1rkg | VD1 | Vitamin D3 receptor | / | 0.645 | |
| 3w5t | LHP | Vitamin D3 receptor | / | 0.645 | |
| 2has | C3O | Vitamin D3 receptor | / | 0.642 | |
| 1ie9 | VDX | Vitamin D3 receptor | / | 0.640 | |
| 2zla | VDB | Vitamin D3 receptor | / | 0.639 | |
| 3vrv | YSD | Vitamin D3 receptor | / | 0.635 | |
| 4ruj | VDX | Vitamin D3 receptor A | / | 0.634 | |
| 3vt4 | 5YI | Vitamin D3 receptor | / | 0.632 | |
| 2o4j | VD4 | Vitamin D3 receptor | / | 0.631 | |
| 1rjk | VDZ | Vitamin D3 receptor | / | 0.630 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.629 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.628 | |
| 3w0y | DS4 | Vitamin D3 receptor | / | 0.628 | |
| 3w0c | 6DS | Vitamin D3 receptor | / | 0.627 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.626 | |
| 3w0h | W12 | Vitamin D3 receptor | / | 0.625 | |
| 1s0z | EB1 | Vitamin D3 receptor | / | 0.624 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.624 | |
| 3w5r | LOA | Vitamin D3 receptor | / | 0.624 | |
| 1ie8 | KH1 | Vitamin D3 receptor | / | 0.618 | |
| 3vtb | TKA | Vitamin D3 receptor | / | 0.617 | |
| 4g20 | 484 | Vitamin D3 receptor A | / | 0.617 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.616 | |
| 3w0g | W07 | Vitamin D3 receptor | / | 0.614 | |
| 3w5p | 4OA | Vitamin D3 receptor | / | 0.608 | |
| 3vrt | YS2 | Vitamin D3 receptor | / | 0.606 | |
| 3m7r | VDX | Vitamin D3 receptor | / | 0.605 | |
| 4q0a | 4OA | Vitamin D3 receptor A | / | 0.594 | |
| 3w0i | O11 | Vitamin D3 receptor | / | 0.592 | |
| 3w5q | 3KL | Vitamin D3 receptor | / | 0.590 | |
| 4g2i | 0VQ | Vitamin D3 receptor | / | 0.521 | |
| 1iyz | NDP | Probable quinone oxidoreductase | / | 0.465 | |
| 2zb8 | IMN | Prostaglandin reductase 2 | 1.3.1.48 | 0.465 | |
| 1nq7 | ARL | Nuclear receptor ROR-beta | / | 0.461 | |
| 3czr | 3CZ | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.458 | |
| 1guf | NDP | Enoyl-[acyl-carrier-protein] reductase 1, mitochondrial | 1.3.1.10 | 0.455 | |
| 4l8u | 9AZ | Serum albumin | / | 0.453 | |
| 1uyf | PU1 | Heat shock protein HSP 90-alpha | / | 0.452 | |
| 4hfr | 14M | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.450 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.449 | |
| 3nx4 | NAP | Putative oxidoreductase | / | 0.449 | |
| 2pr2 | DG1 | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.448 | |
| 3stw | 2TD | Methylketone synthase I | / | 0.448 | |
| 4jib | 1L6 | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.447 | |
| 5k2b | ZMA | Adenosine receptor A2a | / | 0.447 | |
| 3dl9 | V2H | Vitamin D 25-hydroxylase | / | 0.446 | |
| 1ppj | SMA | Cytochrome b | / | 0.445 | |
| 3zep | 1NX | Tyrosine-protein kinase JAK3 | 2.7.10.2 | 0.445 | |
| 2hw2 | RFP | Rifampin ADP-ribosyl transferase | / | 0.444 | |
| 3stv | 3HO | Methylketone synthase I | / | 0.444 | |
| 1h69 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.442 | |
| 3fco | IIG | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.442 | |
| 3stu | DK3 | Methylketone synthase I | / | 0.442 | |
| 4o70 | 1QK | Bromodomain-containing protein 4 | / | 0.441 | |
| 5bp9 | SAH | Putative methyltransferase protein | / | 0.441 | |
| 1sn5 | T3 | Transthyretin | / | 0.440 | |
| 1y60 | H4M | 5,6,7,8-tetrahydromethanopterin hydro-lyase | 4.2.1.147 | 0.440 | |
| 2hwr | DRD | Peroxisome proliferator-activated receptor gamma | / | 0.440 | |
| 2nq8 | ZID | Enoyl-ACP reductase | / | 0.440 | |
| 2wuf | KEM | 4,5:9,10-diseco-3-hydroxy-5,9,17-trioxoandrosta-1(10),2-diene-4-oate hydrolase | 3.7.1.17 | 0.440 | |
| 3a1l | 2CC | Cytochrome P450 | / | 0.440 | |
| 4kvx | ACO | N-terminal acetyltransferase A complex catalytic subunit ard1 | 2.3.1.88 | 0.440 |