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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
3l5e BDW Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3l5e BDWBeta-secretase 1 3.4.23.46 1.194
3l5d BDVBeta-secretase 1 3.4.23.46 0.843
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.744
4e5i 0N9Polymerase acidic protein / 0.744
2f3e AXQBeta-secretase 1 3.4.23.46 0.716
4joo 1M4Beta-secretase 1 3.4.23.46 0.709
4jpe 1M7Beta-secretase 1 3.4.23.46 0.704
4b72 2FBBeta-secretase 1 3.4.23.46 0.692
3cib 314Beta-secretase 1 3.4.23.46 0.690
4dju 0KKBeta-secretase 1 3.4.23.46 0.690
4b0q GMFBeta-secretase 1 3.4.23.46 0.685
4acx S8ZBeta-secretase 1 3.4.23.46 0.682
4b05 32DBeta-secretase 1 3.4.23.46 0.681
4azy 7F3Beta-secretase 1 3.4.23.46 0.678
2viz VG4Beta-secretase 1 3.4.23.46 0.674
4djx 0KQBeta-secretase 1 3.4.23.46 0.671
2vj7 VG6Beta-secretase 1 3.4.23.46 0.669
3k5f AYHBeta-secretase 1 3.4.23.46 0.664
4lxm 1YUBeta-secretase 1 3.4.23.46 0.663
4lxk 1YTBeta-secretase 1 3.4.23.46 0.660
1c5n ESIProthrombin 3.4.21.5 0.657
2vj6 VG5Beta-secretase 1 3.4.23.46 0.657
2zfr 46UProthrombin 3.4.21.5 0.654