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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
1khz ADV ADP-ribose pyrophosphatase 3.6.1.13

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1khz ADVADP-ribose pyrophosphatase 3.6.1.13 1.228
2dsc APRADP-sugar pyrophosphatase 3.6.1.13 0.843
3bm4 ADVADP-sugar pyrophosphatase 3.6.1.13 0.798
2yvp RBYMutT/nudix family protein / 0.774
5c7t APRADP-ribose pyrophosphatase / 0.764
1mqe APRMutT/nudix family protein / 0.700
1mk1 APRMutT/nudix family protein / 0.682
1d3g BREDihydroorotate dehydrogenase (quinone), mitochondrial 1.3.5.2 0.665
1eqh FLPProstaglandin G/H synthase 1 1.14.99.1 0.664
3mzb BHRNickel-binding periplasmic protein / 0.662
1q4g BFLProstaglandin G/H synthase 1 1.14.99.1 0.661
1qmf KEFPenicillin-binding protein 2x / 0.658
4ie0 PD2Alpha-ketoglutarate-dependent dioxygenase FTO / 0.658
4ie5 MD6Alpha-ketoglutarate-dependent dioxygenase FTO / 0.654
1mdl SMNMandelate racemase / 0.653
1u4s BIHL-lactate dehydrogenase 1.1.1.27 0.653
2r7n ADP5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase / 0.651