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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
2ed5 SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2ed5 SAHDiphthine synthase / 1.102
2eh4 SAHDiphthine synthase / 1.096
2en5 SAHDiphthine synthase / 1.096
2pca SAHDiphthine synthase / 1.096
2pcg SAHDiphthine synthase / 1.096
2e8s SAHDiphthine synthase / 1.095
2ejk SAHDiphthine synthase / 1.095
2ek4 SAHDiphthine synthase / 1.095
2eld SAHDiphthine synthase / 1.095
2emr SAHDiphthine synthase / 1.095
2pb5 SAHDiphthine synthase / 1.095
2e8r SAHDiphthine synthase / 1.094
2eka SAHDiphthine synthase / 1.094
2el3 SAHDiphthine synthase / 1.094
2eh5 SAHDiphthine synthase / 1.093
2ek2 SAHDiphthine synthase / 1.093
2pb6 SAHDiphthine synthase / 1.093
2p5f SAHDiphthine synthase / 1.081
2pch SAHDiphthine synthase / 1.080
2dxx SAHDiphthine synthase / 1.079
2egs SAHDiphthine synthase / 1.079
2dv3 SAHDiphthine synthase / 1.077
2e4n SAHDiphthine synthase / 1.077
2eh2 SAHDiphthine synthase / 1.077
2ek7 SAHDiphthine synthase / 1.077
2el0 SAHDiphthine synthase / 1.077
2p9d SAHDiphthine synthase / 1.077
1wng SAHDiphthine synthase / 1.075
2p6k SAHDiphthine synthase / 1.075
2p6l SAHDiphthine synthase / 1.075
2dv5 SAHDiphthine synthase / 1.074
2e8h SAHDiphthine synthase / 1.074
2eeq SAHDiphthine synthase / 1.074
2huv SAHDiphthine synthase / 1.073
2p6d SAHDiphthine synthase / 1.073
2pci SAHDiphthine synthase / 1.073
2ek3 SAHDiphthine synthase / 1.072
2p5c SAHDiphthine synthase / 1.072
2pb4 SAHDiphthine synthase / 1.072
2owg SAHDiphthine synthase / 1.069
2ele SAHDiphthine synthase / 1.062
2e07 SAHDiphthine synthase / 1.061
2e7r SAHDiphthine synthase / 1.061
2egb SAHDiphthine synthase / 1.061
2eni SAHDiphthine synthase / 1.061
2dxv SAHDiphthine synthase / 1.060
2dxw SAHDiphthine synthase / 1.060
2e08 SAHDiphthine synthase / 1.060
2egl SAHDiphthine synthase / 1.060
2ehl SAHDiphthine synthase / 1.060
2e15 SAHDiphthine synthase / 1.059
2owk SAHDiphthine synthase / 1.059
2pck SAHDiphthine synthase / 1.059
2z6r SAHDiphthine synthase / 1.059
2dsg SAHDiphthine synthase / 1.058
2dsh SAHDiphthine synthase / 1.058
2dsi SAHDiphthine synthase / 1.058
2dv7 SAHDiphthine synthase / 1.058
2e16 SAHDiphthine synthase / 1.058
2e17 SAHDiphthine synthase / 1.058
2ejj SAHDiphthine synthase / 1.057
2p6i SAHDiphthine synthase / 1.057
2dek SAHDiphthine synthase / 1.055
2owv SAHDiphthine synthase / 1.055
2emu SAHDiphthine synthase / 1.054
1vce SAHDiphthine synthase / 1.053
2p2x SAHDiphthine synthase / 1.052
2pcm SAHDiphthine synthase / 1.044
2e8q SAHDiphthine synthase / 1.043
2hut SAHDiphthine synthase / 1.040
2huq SAHDiphthine synthase / 1.039
2owu SAHDiphthine synthase / 1.038
2dv4 SAHDiphthine synthase / 1.037
2hux SAHDiphthine synthase / 0.948
2hr8 SAHDiphthine synthase / 0.904
2ejz SAHDiphthine synthase / 0.846
2owf SAHDiphthine synthase / 0.760
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.716
2ed3 SAHDiphthine synthase / 0.706
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.701
4x3l MTARNA 2'-O ribose methyltransferase / 0.692
2zvb SAHPrecorrin-3 C17-methyltransferase / 0.683
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.681
2ha8 SAHProbable methyltransferase TARBP1 / 0.673
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.672
2qbu SAHPrecorrin-2 methyltransferase / 0.671
3s3t ATPUniversal stress protein / 0.668
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.664
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.663
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.658
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.656
2bb3 SAHCobalamin biosynthesis precorrin-6Y methylase (CbiE) / 0.654
1id0 ANPSensor protein PhoQ 2.7.13.3 0.653
1mxi SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.653
3zu0 A12NAD 5'-nucleotidase 3.1.3.5 0.652
4rr8 A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.652
4rrb A3TProbable threonine--tRNA ligase 2 6.1.1.3 0.651