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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
3ump ATP ATP-dependent 6-phosphofructokinase isozyme 2 2.7.1.11

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3ump ATPATP-dependent 6-phosphofructokinase isozyme 2 2.7.1.11 1.211
3umo ATPATP-dependent 6-phosphofructokinase isozyme 2 2.7.1.11 1.188
3uqd ATPATP-dependent 6-phosphofructokinase isozyme 2 2.7.1.11 1.041
3uqd ADPATP-dependent 6-phosphofructokinase isozyme 2 2.7.1.11 0.855
4o1g AGSAdenosine kinase 2.7.1.20 0.707
2f02 ATPTagatose-6-phosphate kinase / 0.704
2ab8 ACPAdenosine kinase 2.7.1.20 0.685
3rye UNRFarnesyl pyrophosphate synthase 2.5.1.10 0.681
1mb9 ATPCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.680
4mrt COA4'-phosphopantetheinyl transferase sfp 2.7.8 0.680
4s1h ADPPyridoxal kinase, putative / 0.679
4c2u ANPDNA helicase / 0.678
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.673
1rkd ADPRibokinase / 0.672
3ldw ZOLFarnesyl pyrophosphate synthase, putative / 0.669
5c3y AN2Ribokinase / 0.666
4dwb 0M7Farnesyl pyrophosphate synthase / 0.665
1nhh ANPDNA mismatch repair protein MutL / 0.663
2q3f GNPRas-related GTP-binding protein D / 0.663
5c40 ACPRibokinase / 0.662
5c3z ACPRibokinase / 0.661
1okk GCPSignal recognition particle protein / 0.660
1okk GCPSignal recognition particle receptor FtsY / 0.660
2bme GNPRas-related protein Rab-4A / 0.660
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.660
5c41 ACPRibokinase / 0.659
2j0s ANPEukaryotic initiation factor 4A-III 3.6.4.13 0.654
1z5c ADPType 2 DNA topoisomerase 6 subunit B / 0.652
4tnx DGTDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.652
3a58 GNPGTP-binding protein RHO1 / 0.650