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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
4lfg IPE Putative geranyltranstransferase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4lfg IPEPutative geranyltranstransferase / 0.970
1rqj IPEFarnesyl diphosphate synthase 2.5.1.10 0.900
4kqs IPEFarnesyl pyrophosphate synthase 2.5.1.10 0.832
3krf IPEGeranyl diphosphate synthase large subunit / 0.826
4nke IPEFarnesyl pyrophosphate synthase 2.5.1.10 0.815
3ez3 IPEFarnesyl pyrophosphate synthase, putative / 0.779
3ldw IPEFarnesyl pyrophosphate synthase, putative / 0.735
2e93 B29Geranylgeranyl pyrophosphate synthase / 0.669
3rs5 GNPGTPase HRas / 0.667
3rs7 GNPGTPase HRas / 0.667
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.665
4l9w GNPGTPase HRas / 0.665
3ews ADPATP-dependent RNA helicase DDX19B 3.6.4.13 0.664
3buv NAP3-oxo-5-beta-steroid 4-dehydrogenase / 0.663
3dop NAP3-oxo-5-beta-steroid 4-dehydrogenase / 0.663
3g1r NAP3-oxo-5-beta-steroid 4-dehydrogenase / 0.662
3koy Z97D-ornithine 4,5-aminomutase subunit beta / 0.661
3sqw ANPATP-dependent RNA helicase MSS116, mitochondrial 3.6.4.13 0.660
4cnz ADPNitrogen regulatory protein P-II 1 / 0.657
4utd ACPAurora kinase A 2.7.11.1 0.656
2jiz ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.655
2j0s ANPEukaryotic initiation factor 4A-III 3.6.4.13 0.654
3tnf GNPRas-related protein Rab-8A / 0.654
3ez3 ZOLFarnesyl pyrophosphate synthase, putative / 0.651
5l8l ADPAurora kinase A 2.7.11.1 0.651