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 Modes are compared using Grim.
For more information, please see the following publication:
Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 4d89 | BXD | Beta-secretase 1 | 3.4.23.46 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4d89 | BXD | Beta-secretase 1 | 3.4.23.46 | 1.237 | |
| 4lxa | 1YS | Beta-secretase 1 | 3.4.23.46 | 1.101 | |
| 4lxk | 1YT | Beta-secretase 1 | 3.4.23.46 | 1.083 | |
| 4lxm | 1YU | Beta-secretase 1 | 3.4.23.46 | 1.061 | |
| 3vg1 | 0GT | Beta-secretase 1 | 3.4.23.46 | 0.964 | |
| 3vf3 | 0GS | Beta-secretase 1 | 3.4.23.46 | 0.949 | |
| 3cib | 314 | Beta-secretase 1 | 3.4.23.46 | 0.866 | |
| 3qbh | QBH | Beta-secretase 1 | 3.4.23.46 | 0.857 | |
| 3pi5 | 3P5 | Beta-secretase 1 | 3.4.23.46 | 0.853 | |
| 2hm1 | LIQ | Beta-secretase 1 | 3.4.23.46 | 0.852 | |
| 3dv5 | BAV | Beta-secretase 1 | 3.4.23.46 | 0.840 | |
| 3lpk | Z76 | Beta-secretase 1 | 3.4.23.46 | 0.838 | |
| 2iqg | F2I | Beta-secretase 1 | 3.4.23.46 | 0.829 | |
| 3veu | 0GO | Beta-secretase 1 | 3.4.23.46 | 0.829 | |
| 3lpi | Z74 | Beta-secretase 1 | 3.4.23.46 | 0.810 | |
| 3k5c | 0BI | Beta-secretase 1 | 3.4.23.46 | 0.805 | |
| 3lpj | Z75 | Beta-secretase 1 | 3.4.23.46 | 0.790 | |
| 2vj7 | VG6 | Beta-secretase 1 | 3.4.23.46 | 0.788 | |
| 4dus | 0MP | Beta-secretase 1 | 3.4.23.46 | 0.779 | |
| 2wf0 | ZY0 | Beta-secretase 1 | 3.4.23.46 | 0.759 | |
| 3ohf | 3HF | Beta-secretase 1 | 3.4.23.46 | 0.758 | |
| 4i0h | 1BL | Beta-secretase 1 | 3.4.23.46 | 0.757 | |
| 1w51 | L01 | Beta-secretase 1 | 3.4.23.46 | 0.755 | |
| 3nsh | 957 | Beta-secretase 1 | 3.4.23.46 | 0.749 | |
| 4i0i | 957 | Beta-secretase 1 | 3.4.23.46 | 0.749 | |
| 1g7u | PEP | 2-dehydro-3-deoxyphosphooctonate aldolase | 2.5.1.55 | 0.744 | |
| 4e5i | 0N9 | Polymerase acidic protein | / | 0.744 | |
| 2hiz | LIJ | Beta-secretase 1 | 3.4.23.46 | 0.741 | |
| 2vie | VG0 | Beta-secretase 1 | 3.4.23.46 | 0.737 | |
| 4k8s | 1QT | Beta-secretase 1 | 3.4.23.46 | 0.735 | |
| 3cid | 318 | Beta-secretase 1 | 3.4.23.46 | 0.734 | |
| 4exg | 916 | Beta-secretase 1 | 3.4.23.46 | 0.731 | |
| 2viy | VG3 | Beta-secretase 1 | 3.4.23.46 | 0.729 | |
| 2p83 | MR0 | Beta-secretase 1 | 3.4.23.46 | 0.720 | |
| 4ewo | 996 | Beta-secretase 1 | 3.4.23.46 | 0.718 | |
| 4ke1 | 1R6 | Beta-secretase 1 | 3.4.23.46 | 0.717 | |
| 2p8h | MY9 | Beta-secretase 1 | 3.4.23.46 | 0.712 | |
| 3skg | PB8 | Beta-secretase 1 | 3.4.23.46 | 0.707 | |
| 4dh6 | 0KN | Beta-secretase 1 | 3.4.23.46 | 0.697 | |
| 2xfi | XFI | Beta-secretase 1 | 3.4.23.46 | 0.695 | |
| 2wf3 | ZY3 | Beta-secretase 1 | 3.4.23.46 | 0.694 | |
| 3ohh | 3HH | Beta-secretase 1 | 3.4.23.46 | 0.694 | |
| 3cic | 316 | Beta-secretase 1 | 3.4.23.46 | 0.689 | |
| 4k9h | 1QU | Beta-secretase 1 | 3.4.23.46 | 0.685 | |
| 4ke0 | 1R8 | Beta-secretase 1 | 3.4.23.46 | 0.685 | |
| 2xfk | AA9 | Beta-secretase 1 | 3.4.23.46 | 0.683 | |
| 3pww | ROC | Endothiapepsin | 3.4.23.22 | 0.681 | |
| 3n4l | 842 | Beta-secretase 1 | 3.4.23.46 | 0.679 | |
| 2viz | VG4 | Beta-secretase 1 | 3.4.23.46 | 0.667 | |
| 2vnn | CM7 | Beta-secretase 1 | 3.4.23.46 | 0.666 | |
| 2wf1 | ZY1 | Beta-secretase 1 | 3.4.23.46 | 0.666 | |
| 3dm6 | 757 | Beta-secretase 1 | 3.4.23.46 | 0.665 | |
| 3dv1 | AR9 | Beta-secretase 1 | 3.4.23.46 | 0.663 | |
| 2xfj | VG5 | Beta-secretase 1 | 3.4.23.46 | 0.660 | |
| 4e5f | 0N7 | Polymerase acidic protein | / | 0.660 | |
| 2vnm | CM8 | Beta-secretase 1 | 3.4.23.46 | 0.656 |