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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
1f06 NDP Meso-diaminopimelate D-dehydrogenase 1.4.1.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1f06 NDPMeso-diaminopimelate D-dehydrogenase 1.4.1.16 1.273
1dap NDPMeso-diaminopimelate D-dehydrogenase 1.4.1.16 1.067
3wyc NAPMeso-diaminopimelate D-dehydrogenase 1.4.1.16 0.936
2h63 NAPBiliverdin reductase A 1.3.1.24 0.736
3wbf NAPMeso-diaminopimelate D-dehydrogenase / 0.717
3rv3 ADPBiotin carboxylase 6.3.4.14 0.674
4ycp FMNtRNA-dihydrouridine(16) synthase / 0.667
2fto TMPThymidylate synthase / 0.663
3qpv ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.662
3qe2 NAPNADPH--cytochrome P450 reductase / 0.661
1mb4 NDPAspartate-semialdehyde dehydrogenase 1 / 0.657
1w87 NAPFerredoxin--NADP reductase 1.18.1.2 0.657
4ccq NAPThioredoxin reductase / 0.656
1ndc TYDNucleoside diphosphate kinase, cytosolic 2.7.4.6 0.654