Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
1rkp IBM cGMP-specific 3',5'-cyclic phosphodiesterase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1rkp IBMcGMP-specific 3',5'-cyclic phosphodiesterase / 0.865
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.744
4e5i 0N9Polymerase acidic protein / 0.744
3itu IBMcGMP-dependent 3',5'-cyclic phosphodiesterase 3.1.4.17 0.712
1soj IBMcGMP-inhibited 3',5'-cyclic phosphodiesterase B 3.1.4.17 0.708
2yy2 IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A / 0.667
1v2h GUNPurine nucleoside phosphorylase 2.4.2.1 0.665
3bjc WANcGMP-specific 3',5'-cyclic phosphodiesterase / 0.664
4e5f 0N7Polymerase acidic protein / 0.660