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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
4bdo KAI Glutamate receptor ionotropic, kainate 2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4bdo KAIGlutamate receptor ionotropic, kainate 2 / 1.019
2xxy KAIGlutamate receptor ionotropic, kainate 2 / 1.001
4bdr KAIGlutamate receptor ionotropic, kainate 2 / 0.976
2xxv KAIGlutamate receptor ionotropic, kainate 2 / 0.957
3c35 KAIGlutamate receptor ionotropic, kainate 1 / 0.876
4f31 KAIGlutamate receptor 3 / 0.852
1lbb KAIGlutamate receptor 2 / 0.822
1fw0 KAIGlutamate receptor 2 / 0.811
4f3g KAIGlutamate receptor 3 / 0.808
3c36 KAIGlutamate receptor ionotropic, kainate 1 / 0.799
3kfm KAIGlutamate receptor 4 / 0.793
2pbw DOQGlutamate receptor ionotropic, kainate 1 / 0.784
3c34 KAIGlutamate receptor ionotropic, kainate 1 / 0.777
2wky IBCGlutamate receptor ionotropic, kainate 1 / 0.745
3s2v 3HUGlutamate receptor ionotropic, kainate 1 / 0.725
4dld TZGGlutamate receptor ionotropic, kainate 1 / 0.719
1vso AT1Glutamate receptor ionotropic, kainate 1 / 0.703
2ojt UBAGlutamate receptor ionotropic, kainate 1 / 0.675
5bp9 SAHPutative methyltransferase protein / 0.675
4h8i 11WGlutamate receptor ionotropic, kainate 2 / 0.669
2qs1 UB1Glutamate receptor ionotropic, kainate 1 / 0.658
2rd5 NLGAcetylglutamate kinase, chloroplastic 2.7.2.8 0.657
3lcu SAH16S rRNA (guanine(1405)-N(7))-methyltransferase 2.1.1.179 0.657
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.656
1opm IYGPeptidyl-glycine alpha-amidating monooxygenase 1.14.17.3 0.652
3h06 VBPGlutamate receptor 2 / 0.651