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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
2pcm SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2pcm SAHDiphthine synthase / 1.108
2p9d SAHDiphthine synthase / 1.102
2ek7 SAHDiphthine synthase / 1.101
2p6l SAHDiphthine synthase / 1.099
2dxx SAHDiphthine synthase / 1.097
2e4n SAHDiphthine synthase / 1.097
2eh5 SAHDiphthine synthase / 1.097
2pb5 SAHDiphthine synthase / 1.097
2e8r SAHDiphthine synthase / 1.095
2ek4 SAHDiphthine synthase / 1.095
2eh4 SAHDiphthine synthase / 1.094
2emr SAHDiphthine synthase / 1.094
2e8s SAHDiphthine synthase / 1.093
2en5 SAHDiphthine synthase / 1.093
2pcg SAHDiphthine synthase / 1.093
2eka SAHDiphthine synthase / 1.092
2ek3 SAHDiphthine synthase / 1.084
2ele SAHDiphthine synthase / 1.083
2e08 SAHDiphthine synthase / 1.082
2eni SAHDiphthine synthase / 1.082
2owk SAHDiphthine synthase / 1.082
2p6k SAHDiphthine synthase / 1.081
2eh2 SAHDiphthine synthase / 1.079
2p5f SAHDiphthine synthase / 1.079
2pb6 SAHDiphthine synthase / 1.079
2pck SAHDiphthine synthase / 1.079
2dxw SAHDiphthine synthase / 1.078
2pca SAHDiphthine synthase / 1.078
2e17 SAHDiphthine synthase / 1.076
2owg SAHDiphthine synthase / 1.073
2p6d SAHDiphthine synthase / 1.072
2el3 SAHDiphthine synthase / 1.065
2ejj SAHDiphthine synthase / 1.064
2dek SAHDiphthine synthase / 1.062
2dsg SAHDiphthine synthase / 1.062
2e16 SAHDiphthine synthase / 1.061
2z6r SAHDiphthine synthase / 1.061
2dv5 SAHDiphthine synthase / 1.060
2dxv SAHDiphthine synthase / 1.060
2e07 SAHDiphthine synthase / 1.060
2e7r SAHDiphthine synthase / 1.060
2egb SAHDiphthine synthase / 1.060
2ehl SAHDiphthine synthase / 1.060
2dsh SAHDiphthine synthase / 1.059
2dv7 SAHDiphthine synthase / 1.059
2egl SAHDiphthine synthase / 1.059
2eld SAHDiphthine synthase / 1.059
2dv3 SAHDiphthine synthase / 1.058
2e8h SAHDiphthine synthase / 1.058
2eeq SAHDiphthine synthase / 1.056
2egs SAHDiphthine synthase / 1.056
2el0 SAHDiphthine synthase / 1.055
2e15 SAHDiphthine synthase / 1.054
2huq SAHDiphthine synthase / 1.054
1wng SAHDiphthine synthase / 1.053
2huv SAHDiphthine synthase / 1.053
2hut SAHDiphthine synthase / 1.048
2ed5 SAHDiphthine synthase / 1.044
2pch SAHDiphthine synthase / 1.042
2dv4 SAHDiphthine synthase / 1.041
2ek2 SAHDiphthine synthase / 1.040
2owu SAHDiphthine synthase / 1.040
2pb4 SAHDiphthine synthase / 1.040
2owv SAHDiphthine synthase / 1.036
2p5c SAHDiphthine synthase / 1.036
2p6i SAHDiphthine synthase / 1.032
2ejk SAHDiphthine synthase / 1.027
2dsi SAHDiphthine synthase / 1.025
2emu SAHDiphthine synthase / 1.015
2p2x SAHDiphthine synthase / 1.011
2pci SAHDiphthine synthase / 1.010
1vce SAHDiphthine synthase / 1.006
2e8q SAHDiphthine synthase / 0.999
2hux SAHDiphthine synthase / 0.941
2hr8 SAHDiphthine synthase / 0.888
2ejz SAHDiphthine synthase / 0.755
2owf SAHDiphthine synthase / 0.749
2ed3 SAHDiphthine synthase / 0.710
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.693
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.688
2ybo SAHMethyltransferase / 0.681
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.680
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.680
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.679
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.677
4rr8 A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.669
2hma SAMtRNA-specific 2-thiouridylase MnmA / 0.668
1kp2 ATPArgininosuccinate synthase 6.3.4.5 0.664
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.662
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.662
2zvb SAHPrecorrin-3 C17-methyltransferase / 0.661
5jhn SAMHistone-lysine N-methyltransferase EHMT2 / 0.659
2ydo ADNAdenosine receptor A2a / 0.657
4ypa SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.657
3nut SAHPrecorrin-3 methylase / 0.655
1kp3 ATPArgininosuccinate synthase 6.3.4.5 0.653
4cnf MTASpoU rRNA methylase / 0.653
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.651