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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
3krf IPE Geranyl diphosphate synthase large subunit

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3krf IPEGeranyl diphosphate synthase large subunit / 1.003
4nke IPEFarnesyl pyrophosphate synthase 2.5.1.10 0.873
1rqj IPEFarnesyl diphosphate synthase 2.5.1.10 0.872
4lfg IPEPutative geranyltranstransferase / 0.826
4kqs IPEFarnesyl pyrophosphate synthase 2.5.1.10 0.806
3ldw IPEFarnesyl pyrophosphate synthase, putative / 0.763
3ez3 IPEFarnesyl pyrophosphate synthase, putative / 0.752
2fzj DH3Dihydrofolate reductase 1.5.1.3 0.669
1fnd A2PFerredoxin--NADP reductase, chloroplastic 1.18.1.2 0.666
1ee1 DNDNH(3)-dependent NAD(+) synthetase 6.3.1.5 0.664
4hmw FMNPyridoxamine 5'-phosphate oxidase / 0.663
2y9q ANPMitogen-activated protein kinase 1 2.7.11.24 0.661
2vwq NAPGlucose 1-dehydrogenase / 0.658
3n0z 3ATAdenylate cyclase 2 / 0.657
1qrs ATPGlutamine--tRNA ligase 6.1.1.18 0.655
4hmx FMNPyridoxamine 5'-phosphate oxidase / 0.652
4qjl COAPhosphopantetheinyl transferase, PptII / 0.652
3m0e ATPTranscriptional regulator (NtrC family) / 0.651
4to0 DTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.650