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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
4lv5 ADP Rhoptry protein 5B

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4lv5 ADPRhoptry protein 5B / 0.996
4lv8 ADPRhoptry protein 5 C / 0.822
3q60 ATPRhoptry protein 5B / 0.791
1b38 ATPCyclin-dependent kinase 2 2.7.11.22 0.733
2w5b AGSSerine/threonine-protein kinase Nek2 2.7.11.1 0.698
4qml ANPSerine/threonine-protein kinase 24 2.7.11.1 0.693
5dwq SFGHistone-arginine methyltransferase CARM1 / 0.674
3iv6 SAMUncharacterized protein / 0.668
4zrn UPGUDP-glucose 4-epimerase, putative / 0.668
3enk UPGUDP-glucose 4-epimerase / 0.667
4gva ADPMitogen-activated protein kinase 1 2.7.11.24 0.665
1foa UD1Alpha-1,3-mannosyl-glycoprotein 2-beta-N-acetylglucosaminyltransferase 2.4.1.101 0.663
1n7h GDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.661
2w5a ADPSerine/threonine-protein kinase Nek2 2.7.11.1 0.660
3ou7 SAMSAM-dependent methyltransferase / 0.660
1i3l GDUUDP-glucose 4-epimerase / 0.658
4fg8 ATPCalcium/calmodulin-dependent protein kinase type 1 2.7.11.17 0.657
4m69 ANPReceptor-interacting serine/threonine-protein kinase 3 2.7.11.1 0.657
4mb2 ATPUncharacterized protein / 0.657
4ymg SAMPutative SAM-dependent O-methyltranferase / 0.657
1i3m UD1UDP-glucose 4-epimerase / 0.656
3lij ANPCalcium/calmodulin dependent protein kinase with a kinase domain and 4 calmodulin like EF hands / 0.655
1r6t TYMTryptophan--tRNA ligase, cytoplasmic 6.1.1.2 0.654
1i3k UPGUDP-glucose 4-epimerase / 0.652
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.652