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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
3ngu ADP Nucleoside diphosphate kinase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3ngu ADPNucleoside diphosphate kinase / 0.986
4fkx CDPNucleoside diphosphate kinase / 0.793
4uoh ADPNucleoside diphosphate kinase / 0.755
4uof DATNucleoside diphosphate kinase / 0.753
1zs6 ADPNucleoside diphosphate kinase 3 2.7.4.6 0.733
2dxe GDPNucleoside diphosphate kinase 2.7.4.6 0.703
4uog YYYNucleoside diphosphate kinase / 0.702
1nue GDPNucleoside diphosphate kinase B 2.7.4.6 0.691
2hve ADPNucleoside diphosphate kinase A 2.7.4.6 0.672
2dy9 ADPNucleoside diphosphate kinase 2.7.4.6 0.666
1nhk CMPNucleoside diphosphate kinase 2.7.4.6 0.657
2hvd ADPNucleoside diphosphate kinase A 2.7.4.6 0.654