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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
2ek3 SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2ek3 SAHDiphthine synthase / 1.108
2ek7 SAHDiphthine synthase / 1.099
2p9d SAHDiphthine synthase / 1.099
2p6k SAHDiphthine synthase / 1.097
2ele SAHDiphthine synthase / 1.096
2p6l SAHDiphthine synthase / 1.096
2dxx SAHDiphthine synthase / 1.095
2eni SAHDiphthine synthase / 1.095
2e4n SAHDiphthine synthase / 1.094
2pb5 SAHDiphthine synthase / 1.094
2el3 SAHDiphthine synthase / 1.093
2pck SAHDiphthine synthase / 1.093
2e8r SAHDiphthine synthase / 1.092
2pb6 SAHDiphthine synthase / 1.092
2pcg SAHDiphthine synthase / 1.092
2eh4 SAHDiphthine synthase / 1.091
2ek4 SAHDiphthine synthase / 1.091
2emr SAHDiphthine synthase / 1.091
2en5 SAHDiphthine synthase / 1.090
2eka SAHDiphthine synthase / 1.089
2pcm SAHDiphthine synthase / 1.084
2e08 SAHDiphthine synthase / 1.080
2eh5 SAHDiphthine synthase / 1.077
2dxw SAHDiphthine synthase / 1.076
2eh2 SAHDiphthine synthase / 1.076
2p5f SAHDiphthine synthase / 1.076
2e8s SAHDiphthine synthase / 1.075
2e17 SAHDiphthine synthase / 1.074
2pca SAHDiphthine synthase / 1.074
2dv5 SAHDiphthine synthase / 1.073
2eld SAHDiphthine synthase / 1.073
2ed5 SAHDiphthine synthase / 1.072
2p6d SAHDiphthine synthase / 1.069
2ek2 SAHDiphthine synthase / 1.067
2owk SAHDiphthine synthase / 1.063
2ejj SAHDiphthine synthase / 1.061
2dek SAHDiphthine synthase / 1.060
2e16 SAHDiphthine synthase / 1.060
2p6i SAHDiphthine synthase / 1.059
2dxv SAHDiphthine synthase / 1.058
2e07 SAHDiphthine synthase / 1.058
2e7r SAHDiphthine synthase / 1.058
2egb SAHDiphthine synthase / 1.058
2ehl SAHDiphthine synthase / 1.058
2egl SAHDiphthine synthase / 1.057
2z6r SAHDiphthine synthase / 1.057
2dsg SAHDiphthine synthase / 1.056
2dsh SAHDiphthine synthase / 1.056
2dv3 SAHDiphthine synthase / 1.056
2e15 SAHDiphthine synthase / 1.056
2e8h SAHDiphthine synthase / 1.056
2egs SAHDiphthine synthase / 1.053
2huq SAHDiphthine synthase / 1.051
2emu SAHDiphthine synthase / 1.045
2dv4 SAHDiphthine synthase / 1.043
2e8q SAHDiphthine synthase / 1.043
2dv7 SAHDiphthine synthase / 1.042
2eeq SAHDiphthine synthase / 1.041
2owg SAHDiphthine synthase / 1.040
2pb4 SAHDiphthine synthase / 1.040
2ejk SAHDiphthine synthase / 1.039
2pch SAHDiphthine synthase / 1.038
2p5c SAHDiphthine synthase / 1.037
2hut SAHDiphthine synthase / 1.036
2owv SAHDiphthine synthase / 1.036
2el0 SAHDiphthine synthase / 1.035
2huv SAHDiphthine synthase / 1.035
2owu SAHDiphthine synthase / 1.035
1wng SAHDiphthine synthase / 1.020
2dsi SAHDiphthine synthase / 1.007
2p2x SAHDiphthine synthase / 0.995
1vce SAHDiphthine synthase / 0.987
2pci SAHDiphthine synthase / 0.977
2hux SAHDiphthine synthase / 0.919
2hr8 SAHDiphthine synthase / 0.887
2ejz SAHDiphthine synthase / 0.749
2owf SAHDiphthine synthase / 0.720
2ed3 SAHDiphthine synthase / 0.711
2zvb SAHPrecorrin-3 C17-methyltransferase / 0.701
3s3t ATPUniversal stress protein / 0.688
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.685
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.678
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.674
4rr8 A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.671
2qbu SAHPrecorrin-2 methyltransferase / 0.669
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.668
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.666
2ybo SAHMethyltransferase / 0.661
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.661
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.659
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.658
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.654