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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

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


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
4azy 7F3 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4azy 7F3Beta-secretase 1 3.4.23.46 1.071
4b05 32DBeta-secretase 1 3.4.23.46 0.871
4acu QN7Beta-secretase 1 3.4.23.46 0.774
4acx S8ZBeta-secretase 1 3.4.23.46 0.759
4b1d 6TGBeta-secretase 1 3.4.23.46 0.754
4b72 2FBBeta-secretase 1 3.4.23.46 0.745
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.744
4e5i 0N9Polymerase acidic protein / 0.744
4b0q GMFBeta-secretase 1 3.4.23.46 0.737
4joo 1M4Beta-secretase 1 3.4.23.46 0.735
4jp9 1M5Beta-secretase 1 3.4.23.46 0.703
4djv 0KMBeta-secretase 1 3.4.23.46 0.687
4djy 0KRBeta-secretase 1 3.4.23.46 0.687
4b00 I6XBeta-secretase 1 3.4.23.46 0.682
3l5e BDWBeta-secretase 1 3.4.23.46 0.678
4h3f 10OBeta-secretase 1 3.4.23.46 0.665
4b78 KGGBeta-secretase 1 3.4.23.46 0.661
4ne0 ZZUHydroxylase / 0.661
4b1e 6T6Beta-secretase 1 3.4.23.46 0.660
4e5f 0N7Polymerase acidic protein / 0.660
4jpc 1M6Beta-secretase 1 3.4.23.46 0.660
4fud 6UPUrokinase-type plasminogen activator 3.4.21.73 0.658
4fub 4UPUrokinase-type plasminogen activator 3.4.21.73 0.655
2zhw 12UProthrombin 3.4.21.5 0.654
1owk 303Urokinase-type plasminogen activator 3.4.21.73 0.653
1owd 497Urokinase-type plasminogen activator 3.4.21.73 0.651
3biv 11UProthrombin 3.4.21.5 0.651