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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
1rqj IPE Farnesyl diphosphate synthase 2.5.1.10

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1rqj IPEFarnesyl diphosphate synthase 2.5.1.10 1.034
4lfg IPEPutative geranyltranstransferase / 0.900
3krf IPEGeranyl diphosphate synthase large subunit / 0.872
4nke IPEFarnesyl pyrophosphate synthase 2.5.1.10 0.851
4kqs IPEFarnesyl pyrophosphate synthase 2.5.1.10 0.836
3ez3 IPEFarnesyl pyrophosphate synthase, putative / 0.782
3ldw IPEFarnesyl pyrophosphate synthase, putative / 0.779
1khe GCPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.711
4db1 ANPMyosin-7 / 0.689
1kqc FMNOxygen-insensitive NAD(P)H nitroreductase / 0.674
2a41 ATPActin, alpha skeletal muscle / 0.671
3rs4 GNPGTPase HRas / 0.666
3zfd ANPChromosome-associated kinesin KIF4 / 0.664
4m63 ATPActin-5C / 0.664
1wa5 GTPGTP-binding nuclear protein Ran / 0.661
4dlw GNPGTPase HRas / 0.661
2p9k ATPActin-related protein 2 / 0.660
4wso NADProbable nicotinate-nucleotide adenylyltransferase / 0.660
3sbd GNPRas-related C3 botulinum toxin substrate 1 / 0.659
1pt9 TAPNAD(P) transhydrogenase, mitochondrial 1.6.1.2 0.657
1ibr GNPGTP-binding nuclear protein Ran / 0.655
3kmw ATPIntegrin-linked protein kinase 2.7.11.1 0.655
4dxj 0M9Farnesyl pyrophosphate synthase / 0.655
5b2z GNPGTPase HRas / 0.653
2e93 B29Geranylgeranyl pyrophosphate synthase / 0.652
4idn GNPAtlastin-1 3.6.5 0.651
3mn7 ATPActin-5C / 0.650
4yer ADPAntibiotic ABC transporter, ATP-binding protein, putative / 0.650