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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
1vce SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1vce SAHDiphthine synthase / 1.106
1wng SAHDiphthine synthase / 1.074
2dsi SAHDiphthine synthase / 1.074
2dv5 SAHDiphthine synthase / 1.074
2egs SAHDiphthine synthase / 1.073
2dv3 SAHDiphthine synthase / 1.072
2owg SAHDiphthine synthase / 1.059
2dv4 SAHDiphthine synthase / 1.057
2e08 SAHDiphthine synthase / 1.056
2e16 SAHDiphthine synthase / 1.056
2p5f SAHDiphthine synthase / 1.056
2pch SAHDiphthine synthase / 1.056
2pb4 SAHDiphthine synthase / 1.055
2pb6 SAHDiphthine synthase / 1.055
2dxv SAHDiphthine synthase / 1.054
2ed5 SAHDiphthine synthase / 1.053
2eld SAHDiphthine synthase / 1.053
2p5c SAHDiphthine synthase / 1.053
2dsh SAHDiphthine synthase / 1.052
2pca SAHDiphthine synthase / 1.052
2pcg SAHDiphthine synthase / 1.052
2e8h SAHDiphthine synthase / 1.043
2ejk SAHDiphthine synthase / 1.040
2e8r SAHDiphthine synthase / 1.039
2dv7 SAHDiphthine synthase / 1.038
2eh4 SAHDiphthine synthase / 1.037
2en5 SAHDiphthine synthase / 1.037
2owk SAHDiphthine synthase / 1.037
2e17 SAHDiphthine synthase / 1.036
2egl SAHDiphthine synthase / 1.036
2el0 SAHDiphthine synthase / 1.036
2p6k SAHDiphthine synthase / 1.036
2e07 SAHDiphthine synthase / 1.035
2e7r SAHDiphthine synthase / 1.035
2egb SAHDiphthine synthase / 1.035
2p6d SAHDiphthine synthase / 1.035
2p6l SAHDiphthine synthase / 1.035
2dxw SAHDiphthine synthase / 1.034
2dxx SAHDiphthine synthase / 1.034
2ehl SAHDiphthine synthase / 1.034
2huq SAHDiphthine synthase / 1.034
2dsg SAHDiphthine synthase / 1.033
2e15 SAHDiphthine synthase / 1.033
2owv SAHDiphthine synthase / 1.033
2e8s SAHDiphthine synthase / 1.032
2pck SAHDiphthine synthase / 1.031
2pb5 SAHDiphthine synthase / 1.026
2eh5 SAHDiphthine synthase / 1.025
2el3 SAHDiphthine synthase / 1.025
2dek SAHDiphthine synthase / 1.023
2ek4 SAHDiphthine synthase / 1.022
2ek7 SAHDiphthine synthase / 1.022
2p9d SAHDiphthine synthase / 1.022
2eeq SAHDiphthine synthase / 1.021
2ek2 SAHDiphthine synthase / 1.021
2eka SAHDiphthine synthase / 1.021
2emu SAHDiphthine synthase / 1.018
2huv SAHDiphthine synthase / 1.018
2owu SAHDiphthine synthase / 1.018
2p6i SAHDiphthine synthase / 1.010
2pcm SAHDiphthine synthase / 1.006
2e4n SAHDiphthine synthase / 1.005
2emr SAHDiphthine synthase / 1.004
2z6r SAHDiphthine synthase / 1.004
2ele SAHDiphthine synthase / 1.002
2ejj SAHDiphthine synthase / 0.992
2ek3 SAHDiphthine synthase / 0.987
2eh2 SAHDiphthine synthase / 0.985
2e8q SAHDiphthine synthase / 0.974
2eni SAHDiphthine synthase / 0.973
2hut SAHDiphthine synthase / 0.972
2p2x SAHDiphthine synthase / 0.968
2hux SAHDiphthine synthase / 0.949
2pci SAHDiphthine synthase / 0.930
2hr8 SAHDiphthine synthase / 0.875
2owf SAHDiphthine synthase / 0.861
2ejz SAHDiphthine synthase / 0.729
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.728
4x3l MTARNA 2'-O ribose methyltransferase / 0.693
4kpu FADElectron transfer flavoprotein alpha/beta-subunit / 0.687
3s3t ATPUniversal stress protein / 0.677
2ha8 SAHProbable methyltransferase TARBP1 / 0.674
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.674
2qbu SAHPrecorrin-2 methyltransferase / 0.668
3nut SAHPrecorrin-3 methylase / 0.667
4rr7 A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.663
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.654
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.651
1mjh ATPUniversal stress protein MJ0577 / 0.650