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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
4joo 1M4 Beta-secretase 1 3.4.23.46

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4joo 1M4Beta-secretase 1 3.4.23.46 0.977
4jpe 1M7Beta-secretase 1 3.4.23.46 0.854
4jpc 1M6Beta-secretase 1 3.4.23.46 0.849
4jp9 1M5Beta-secretase 1 3.4.23.46 0.844
4b0q GMFBeta-secretase 1 3.4.23.46 0.762
4djy 0KRBeta-secretase 1 3.4.23.46 0.751
4djw 0KPBeta-secretase 1 3.4.23.46 0.749
4b05 32DBeta-secretase 1 3.4.23.46 0.747
4djv 0KMBeta-secretase 1 3.4.23.46 0.738
4acu QN7Beta-secretase 1 3.4.23.46 0.736
4azy 7F3Beta-secretase 1 3.4.23.46 0.735
3l5e BDWBeta-secretase 1 3.4.23.46 0.709
4b1d 6TGBeta-secretase 1 3.4.23.46 0.688
4djx 0KQBeta-secretase 1 3.4.23.46 0.685
1owe 675Urokinase-type plasminogen activator 3.4.21.73 0.679
1vaf ARRNitric oxide synthase, inducible 1.14.13.39 0.679
4acx S8ZBeta-secretase 1 3.4.23.46 0.674
4fuj 1U9Urokinase-type plasminogen activator 3.4.21.73 0.671
1owd 497Urokinase-type plasminogen activator 3.4.21.73 0.668
1sqt UI3Urokinase-type plasminogen activator 3.4.21.73 0.667
1wqv PSMCoagulation factor VII 3.4.21.21 0.663
4fui UI3Urokinase-type plasminogen activator 3.4.21.73 0.663
1c5n ESIProthrombin 3.4.21.5 0.662
2zhf 49UProthrombin 3.4.21.5 0.662
3plp BBACationic trypsin 3.4.21.4 0.662
1ype UIPProthrombin 3.4.21.5 0.661
4baq M4ZProthrombin 3.4.21.5 0.661
1ghv 120Prothrombin 3.4.21.5 0.660
2zp0 PI0Coagulation factor VII 3.4.21.21 0.658
4b1e 6T6Beta-secretase 1 3.4.23.46 0.657
4b72 2FBBeta-secretase 1 3.4.23.46 0.656
2zhw 12UProthrombin 3.4.21.5 0.650
3uxv GUNNADPH-dependent 7-cyano-7-deazaguanine reductase / 0.650