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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
3nut SAH Precorrin-3 methylase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3nut SAHPrecorrin-3 methylase / 0.990
3nd1 SAHPrecorrin-6A synthase (Deacetylating) / 0.857
2ybo SAHMethyltransferase / 0.825
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.820
2zvb SAHPrecorrin-3 C17-methyltransferase / 0.817
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.801
2npn SAMPutative cobalamin synthesis related protein / 0.800
2qbu SAHPrecorrin-2 methyltransferase / 0.798
1v9a SAHUncharacterized protein / 0.789
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.765
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.720
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.707
1wng SAHDiphthine synthase / 0.684
2bb3 SAHCobalamin biosynthesis precorrin-6Y methylase (CbiE) / 0.678
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.675
2pb4 SAHDiphthine synthase / 0.671
4pzk SAHPutative tRNA (cytidine(34)-2'-O)-methyltransferase / 0.670
1kh2 ATPArgininosuccinate synthase / 0.669
2dv4 SAHDiphthine synthase / 0.669
1vce SAHDiphthine synthase / 0.667
2e8h SAHDiphthine synthase / 0.665
1j21 ATPArgininosuccinate synthase / 0.664
2ek2 SAHDiphthine synthase / 0.664
2dv3 SAHDiphthine synthase / 0.663
2e4n SAHDiphthine synthase / 0.662
2eh4 SAHDiphthine synthase / 0.662
2ek7 SAHDiphthine synthase / 0.662
2eka SAHDiphthine synthase / 0.662
2en5 SAHDiphthine synthase / 0.662
2ek4 SAHDiphthine synthase / 0.661
2p9d SAHDiphthine synthase / 0.661
2z6r SAHDiphthine synthase / 0.661
2ele SAHDiphthine synthase / 0.660
2pb5 SAHDiphthine synthase / 0.660
4x3l MTARNA 2'-O ribose methyltransferase / 0.659
2p5c SAHDiphthine synthase / 0.658
2pb6 SAHDiphthine synthase / 0.658
2pcm SAHDiphthine synthase / 0.655
2p2x SAHDiphthine synthase / 0.651