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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
4pb1 RBV Nucleoside permease

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4pb1 RBVNucleoside permease / 0.903
4pda CTNNucleoside permease / 0.819
3tij URINucleoside permease / 0.818
4pd6 URINucleoside permease / 0.818
4pb2 5UDNucleoside permease / 0.780
4pd5 GEONucleoside permease / 0.766
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.744
4e5i 0N9Polymerase acidic protein / 0.744
3ll9 ADPIsopentenyl phosphate kinase / 0.664
1g8o U5PN-acetyllactosaminide alpha-1,3-galactosyltransferase / 0.660
4e5f 0N7Polymerase acidic protein / 0.660
3zcn ATPAdenosine monophosphate-protein transferase SoFic 2.7.7.n1 0.659
4hr2 ADPNucleoside diphosphate kinase / 0.658
3gu4 ANPDeath-associated protein kinase 1 2.7.11.1 0.657
3b6p TMPThree-prime repair exonuclease 1 3.1.11.2 0.656
4okk U5P3'-5' exoribonuclease MT2234.1 / 0.656
2vs5 GDUN-acetyllactosaminide alpha-1,3-galactosyltransferase / 0.651
4u07 ATPAdenosine monophosphate-protein transferase FICD 2.7.7.n1 0.651