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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
2bb3 SAH Cobalamin biosynthesis precorrin-6Y methylase (CbiE)

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2bb3 SAHCobalamin biosynthesis precorrin-6Y methylase (CbiE) / 0.972
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.721
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.720
1v9a SAHUncharacterized protein / 0.720
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.719
2ybo SAHMethyltransferase / 0.713
2qbu SAHPrecorrin-2 methyltransferase / 0.699
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.699
2zvb SAHPrecorrin-3 C17-methyltransferase / 0.690
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.687
2npn SAMPutative cobalamin synthesis related protein / 0.686
3nut SAHPrecorrin-3 methylase / 0.678
3nd1 SAHPrecorrin-6A synthase (Deacetylating) / 0.672
2huv SAHDiphthine synthase / 0.669
2hut SAHDiphthine synthase / 0.668
2e07 SAHDiphthine synthase / 0.657
2huq SAHDiphthine synthase / 0.657
2e8s SAHDiphthine synthase / 0.656
2ejk SAHDiphthine synthase / 0.655
2en5 SAHDiphthine synthase / 0.655
2pca SAHDiphthine synthase / 0.655
2pch SAHDiphthine synthase / 0.655
2dv3 SAHDiphthine synthase / 0.654
2ed5 SAHDiphthine synthase / 0.654
2egs SAHDiphthine synthase / 0.654
2eh4 SAHDiphthine synthase / 0.654
2el0 SAHDiphthine synthase / 0.654
2p5f SAHDiphthine synthase / 0.654
2pcg SAHDiphthine synthase / 0.654
2eeq SAHDiphthine synthase / 0.653
2e4n SAHDiphthine synthase / 0.652
2dek SAHDiphthine synthase / 0.651
2egl SAHDiphthine synthase / 0.651
2p6i SAHDiphthine synthase / 0.651
2z6r SAHDiphthine synthase / 0.651