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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
2d5n NDP Riboflavin biosynthesis protein RibD 1.1.1.193

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2d5n NDPRiboflavin biosynthesis protein RibD 1.1.1.193 1.124
3dga NDPBifunctional dihydrofolate reductase-thymidylate synthase 1.5.1.3 0.784
4kl9 NDPDihydrofolate reductase 1.5.1.3 0.775
3inv NDPBifunctional dihydrofolate reductase-thymidylate synthase 1.5.1.3 0.769
3clb NAPBifunctional dihydrofolate reductase-thymidylate synthase 1.5.1.3 0.763
3kjs NAPBifunctional dihydrofolate reductase-thymidylate synthase / 0.755
5ecc NAPDehydrofolate reductase type I / 0.741
2h2q NAPBifunctional dihydrofolate reductase-thymidylate synthase 1.5.1.3 0.736
1m78 NDPDihydrofolate reductase 1.5.1.3 0.732
4m6j NDPDihydrofolate reductase 1.5.1.3 0.729
4ha9 NDP2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate reductase 1.1.1.302 0.728
1rx1 NAPDihydrofolate reductase 1.5.1.3 0.722
2cig 1DGDihydrofolate reductase 1.5.1.3 0.722
1drh NAPDihydrofolate reductase 1.5.1.3 0.715
3kjr NAPBifunctional dihydrofolate reductase-thymidylate synthase / 0.714
3qls NDPDihydrofolate reductase 1.5.1.3 0.712
3tqa NDPDihydrofolate reductase / 0.704
1ai9 NDPDihydrofolate reductase 1.5.1.3 0.697
1dr3 TAPDihydrofolate reductase 1.5.1.3 0.694
8dfr NDPDihydrofolate reductase 1.5.1.3 0.694
3dg8 NDPBifunctional dihydrofolate reductase-thymidylate synthase 1.5.1.3 0.688
1dr5 NAPDihydrofolate reductase 1.5.1.3 0.674
4xt6 NAPPossible bifunctional enzyme riboflavin biosynthesis protein RibD: diaminohydroxyphosphoribosylaminopyrimidine deaminase (Riboflavin-specific deaminase) + 5-amino-6-(5-phosphoribosylamino)uracil reduc / 0.668
2xw7 NDPDihydrofolate reductase / 0.666
3d84 NDPDihydrofolate reductase 1.5.1.3 0.665
2w3b NDPDihydrofolate reductase 1.5.1.3 0.664
3nxx NDPDihydrofolate reductase 1.5.1.3 0.659
2o7p NAPRiboflavin biosynthesis protein RibD / 0.657