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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
2y4l GDP Uncharacterized protein

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2y4l GDPUncharacterized protein / 1.041
2bo8 GDXMannosylglycerate synthase / 0.814
2y4k GDPUncharacterized protein / 0.789
2bo7 GDPMannosylglycerate synthase / 0.767
3o3p GDDGlycosyl transferase, family 2 / 0.766
4y6n UPGGlucosyl-3-phosphoglycerate synthase 2.4.1.266 0.766
4y6u UPGGlucosyl-3-phosphoglycerate synthase 2.4.1.266 0.762
2y4m GDXUncharacterized protein / 0.747
4y9x UPGGlucosyl-3-phosphoglycerate synthase 2.4.1.266 0.692
4o4i GTPTubulin alpha-1B chain / 0.658
1kws UGAGalactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase 3 / 0.656
3onw GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.654
1jsz NDMCap-specific mRNA (nucleoside-2'-O-)-methyltransferase 2.1.1.57 0.653
1gp2 GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.651