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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
2e8s SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2e8s SAHDiphthine synthase / 1.119
2ek4 SAHDiphthine synthase / 1.114
2pcg SAHDiphthine synthase / 1.114
2eh4 SAHDiphthine synthase / 1.113
2emr SAHDiphthine synthase / 1.113
2en5 SAHDiphthine synthase / 1.113
2pb5 SAHDiphthine synthase / 1.113
2e8r SAHDiphthine synthase / 1.112
2eh5 SAHDiphthine synthase / 1.112
2eka SAHDiphthine synthase / 1.111
2el3 SAHDiphthine synthase / 1.111
2dv3 SAHDiphthine synthase / 1.095
2dxx SAHDiphthine synthase / 1.095
2e4n SAHDiphthine synthase / 1.095
2ed5 SAHDiphthine synthase / 1.095
2ek7 SAHDiphthine synthase / 1.095
2pb6 SAHDiphthine synthase / 1.095
2pca SAHDiphthine synthase / 1.095
2ele SAHDiphthine synthase / 1.094
2p5f SAHDiphthine synthase / 1.094
2p9d SAHDiphthine synthase / 1.094
2eni SAHDiphthine synthase / 1.093
2pcm SAHDiphthine synthase / 1.093
2ek2 SAHDiphthine synthase / 1.092
2p6k SAHDiphthine synthase / 1.092
2p6l SAHDiphthine synthase / 1.092
2pck SAHDiphthine synthase / 1.090
2pch SAHDiphthine synthase / 1.078
2dv5 SAHDiphthine synthase / 1.077
2egs SAHDiphthine synthase / 1.077
2eh2 SAHDiphthine synthase / 1.077
2el0 SAHDiphthine synthase / 1.077
2dxw SAHDiphthine synthase / 1.076
2owk SAHDiphthine synthase / 1.076
2e08 SAHDiphthine synthase / 1.075
2ek3 SAHDiphthine synthase / 1.075
2e17 SAHDiphthine synthase / 1.074
2p6i SAHDiphthine synthase / 1.074
2pb4 SAHDiphthine synthase / 1.074
1wng SAHDiphthine synthase / 1.073
2e8h SAHDiphthine synthase / 1.073
2p6d SAHDiphthine synthase / 1.073
2eeq SAHDiphthine synthase / 1.072
2huq SAHDiphthine synthase / 1.072
2huv SAHDiphthine synthase / 1.072
2owg SAHDiphthine synthase / 1.072
2e8q SAHDiphthine synthase / 1.060
2ejk SAHDiphthine synthase / 1.060
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
2dsg SAHDiphthine synthase / 1.057
2dsi SAHDiphthine synthase / 1.057
2egl SAHDiphthine synthase / 1.057
2ejj SAHDiphthine synthase / 1.057
2z6r SAHDiphthine synthase / 1.057
2dsh SAHDiphthine synthase / 1.056
2e15 SAHDiphthine synthase / 1.056
2e16 SAHDiphthine synthase / 1.055
2dek SAHDiphthine synthase / 1.054
2hut SAHDiphthine synthase / 1.054
2owu SAHDiphthine synthase / 1.053
2eld SAHDiphthine synthase / 1.050
2dv7 SAHDiphthine synthase / 1.042
2emu SAHDiphthine synthase / 1.042
2pci SAHDiphthine synthase / 1.041
2p5c SAHDiphthine synthase / 1.040
2dv4 SAHDiphthine synthase / 1.039
1vce SAHDiphthine synthase / 1.032
2owv SAHDiphthine synthase / 1.024
2p2x SAHDiphthine synthase / 1.019
2hux SAHDiphthine synthase / 0.951
2hr8 SAHDiphthine synthase / 0.892
2ejz SAHDiphthine synthase / 0.767
2owf SAHDiphthine synthase / 0.730
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.691
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.687
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.681
4x3l MTARNA 2'-O ribose methyltransferase / 0.677
2ha8 SAHProbable methyltransferase TARBP1 / 0.673
2hma SAMtRNA-specific 2-thiouridylase MnmA / 0.670
3s3t ATPUniversal stress protein / 0.668
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.664
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.659
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.658
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.657
2bb3 SAHCobalamin biosynthesis precorrin-6Y methylase (CbiE) / 0.656
1id0 ANPSensor protein PhoQ 2.7.13.3 0.655
2qbu SAHPrecorrin-2 methyltransferase / 0.655
1kp3 ATPArgininosuccinate synthase 6.3.4.5 0.654
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.654
4rrb A3TProbable threonine--tRNA ligase 2 6.1.1.3 0.654
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.653
2ydo ADNAdenosine receptor A2a / 0.653
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.653
4rrl A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.653
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.651
2p0a ANPSynapsin-3 / 0.651