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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
1kmy BPY Biphenyl-2,3-diol 1,2-dioxygenase 1.13.11.39

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1kmy BPYBiphenyl-2,3-diol 1,2-dioxygenase 1.13.11.39 0.871
1lgt BP3Biphenyl-2,3-diol 1,2-dioxygenase 1.13.11.39 0.798
1eir BPYBiphenyl-2,3-diol 1,2-dioxygenase 1.13.11.39 0.795
1lkd BP6Biphenyl-2,3-diol 1,2-dioxygenase 1.13.11.39 0.794
1kw8 BPYBiphenyl-2,3-diol 1,2-dioxygenase 1.13.11.39 0.788
1kw6 BPYBiphenyl-2,3-diol 1,2-dioxygenase 1.13.11.39 0.779
1kw9 BPYBiphenyl-2,3-diol 1,2-dioxygenase 1.13.11.39 0.745
1m3q ANGN-glycosylase/DNA lyase 3.2.2 0.744
1kwc BPYBiphenyl-2,3-diol 1,2-dioxygenase 1.13.11.39 0.675
4ek9 EP4Histone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.663
1ozq PRFQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
1ulb GUNPurine nucleoside phosphorylase 2.4.2.1 0.660
2pwu GUNQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
2z1x PRFQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
3bld PRFQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
4gcx PRFQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
4h7z GUNQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
4hqv QEIQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
4hvx QEIQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
4e5l DBHPolymerase acidic protein / 0.654
3i0a DBHNeutrophil gelatinase-associated lipocalin / 0.652