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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
2dv4 SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2dv4 SAHDiphthine synthase / 1.108
2dv5 SAHDiphthine synthase / 1.098
2e16 SAHDiphthine synthase / 1.083
2e08 SAHDiphthine synthase / 1.082
2e17 SAHDiphthine synthase / 1.081
2dsi SAHDiphthine synthase / 1.079
2p6l SAHDiphthine synthase / 1.079
2pb4 SAHDiphthine synthase / 1.077
2pb6 SAHDiphthine synthase / 1.077
2e8r SAHDiphthine synthase / 1.075
2dv3 SAHDiphthine synthase / 1.072
2dsg SAHDiphthine synthase / 1.065
2eni SAHDiphthine synthase / 1.065
2dsh SAHDiphthine synthase / 1.064
2pck SAHDiphthine synthase / 1.063
2ek7 SAHDiphthine synthase / 1.062
2emu SAHDiphthine synthase / 1.062
2eeq SAHDiphthine synthase / 1.061
2owk SAHDiphthine synthase / 1.061
2dv7 SAHDiphthine synthase / 1.060
2dxv SAHDiphthine synthase / 1.060
2e15 SAHDiphthine synthase / 1.060
2dxw SAHDiphthine synthase / 1.059
2dxx SAHDiphthine synthase / 1.059
1vce SAHDiphthine synthase / 1.057
2owg SAHDiphthine synthase / 1.056
2egs SAHDiphthine synthase / 1.055
2p6k SAHDiphthine synthase / 1.054
2pcg SAHDiphthine synthase / 1.053
2p6i SAHDiphthine synthase / 1.049
2p5f SAHDiphthine synthase / 1.044
2e4n SAHDiphthine synthase / 1.043
2ek3 SAHDiphthine synthase / 1.043
2egb SAHDiphthine synthase / 1.042
2egl SAHDiphthine synthase / 1.042
2ejk SAHDiphthine synthase / 1.042
2pb5 SAHDiphthine synthase / 1.042
2e07 SAHDiphthine synthase / 1.041
2e7r SAHDiphthine synthase / 1.041
2el3 SAHDiphthine synthase / 1.041
2pcm SAHDiphthine synthase / 1.041
2ehl SAHDiphthine synthase / 1.040
2pch SAHDiphthine synthase / 1.040
2e8s SAHDiphthine synthase / 1.039
2ek4 SAHDiphthine synthase / 1.038
2en5 SAHDiphthine synthase / 1.038
2ed5 SAHDiphthine synthase / 1.037
2p5c SAHDiphthine synthase / 1.037
1wng SAHDiphthine synthase / 1.036
2eka SAHDiphthine synthase / 1.036
2el0 SAHDiphthine synthase / 1.036
2emr SAHDiphthine synthase / 1.036
2p9d SAHDiphthine synthase / 1.035
2eld SAHDiphthine synthase / 1.034
2huq SAHDiphthine synthase / 1.032
2ele SAHDiphthine synthase / 1.031
2eh5 SAHDiphthine synthase / 1.026
2ejj SAHDiphthine synthase / 1.026
2p6d SAHDiphthine synthase / 1.026
2owu SAHDiphthine synthase / 1.024
2z6r SAHDiphthine synthase / 1.024
2eh4 SAHDiphthine synthase / 1.022
2dek SAHDiphthine synthase / 1.020
2pca SAHDiphthine synthase / 1.020
2e8q SAHDiphthine synthase / 1.012
2eh2 SAHDiphthine synthase / 1.009
2e8h SAHDiphthine synthase / 1.002
2hut SAHDiphthine synthase / 0.999
2ek2 SAHDiphthine synthase / 0.998
2huv SAHDiphthine synthase / 0.985
2owv SAHDiphthine synthase / 0.985
2p2x SAHDiphthine synthase / 0.960
2pci SAHDiphthine synthase / 0.939
2hux SAHDiphthine synthase / 0.914
2hr8 SAHDiphthine synthase / 0.841
2ejz SAHDiphthine synthase / 0.753
2owf SAHDiphthine synthase / 0.752
4l2i FADElectron transfer flavoprotein alpha/beta-subunit / 0.704
3hgm ATPTRAP-T-associated universal stress protein TeaD / 0.695
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.688
3s3t ATPUniversal stress protein / 0.686
3nut SAHPrecorrin-3 methylase / 0.669
1mjh ATPUniversal stress protein MJ0577 / 0.668
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.668
1kp2 ATPArgininosuccinate synthase 6.3.4.5 0.666
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.663
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.663
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.661
3n4k SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.655
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.655
2qbu SAHPrecorrin-2 methyltransferase / 0.652
1qrt ATPGlutamine--tRNA ligase 6.1.1.18 0.651
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.651