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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
2pck SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2pck SAHDiphthine synthase / 1.125
2p6k SAHDiphthine synthase / 1.114
2p6l SAHDiphthine synthase / 1.103
2ele SAHDiphthine synthase / 1.097
2p9d SAHDiphthine synthase / 1.096
2e17 SAHDiphthine synthase / 1.095
2e4n SAHDiphthine synthase / 1.095
2e8r SAHDiphthine synthase / 1.095
2eni SAHDiphthine synthase / 1.095
2eh5 SAHDiphthine synthase / 1.094
2el3 SAHDiphthine synthase / 1.094
2pb6 SAHDiphthine synthase / 1.094
2ek3 SAHDiphthine synthase / 1.093
2emr SAHDiphthine synthase / 1.092
2pb5 SAHDiphthine synthase / 1.092
2pcg SAHDiphthine synthase / 1.092
2ek4 SAHDiphthine synthase / 1.091
2e8s SAHDiphthine synthase / 1.090
2eka SAHDiphthine synthase / 1.090
2dv5 SAHDiphthine synthase / 1.089
2p6d SAHDiphthine synthase / 1.089
2ek7 SAHDiphthine synthase / 1.082
2dxx SAHDiphthine synthase / 1.081
2pcm SAHDiphthine synthase / 1.079
2eh4 SAHDiphthine synthase / 1.078
2dxw SAHDiphthine synthase / 1.077
2e08 SAHDiphthine synthase / 1.077
2en5 SAHDiphthine synthase / 1.077
2dsg SAHDiphthine synthase / 1.076
2owk SAHDiphthine synthase / 1.076
2pca SAHDiphthine synthase / 1.074
2dv3 SAHDiphthine synthase / 1.073
2p5f SAHDiphthine synthase / 1.073
2pb4 SAHDiphthine synthase / 1.073
2owg SAHDiphthine synthase / 1.071
2p6i SAHDiphthine synthase / 1.070
2dv4 SAHDiphthine synthase / 1.063
2dsh SAHDiphthine synthase / 1.062
2e15 SAHDiphthine synthase / 1.062
2emu SAHDiphthine synthase / 1.062
2e16 SAHDiphthine synthase / 1.061
2dek SAHDiphthine synthase / 1.060
2ehl SAHDiphthine synthase / 1.060
2dxv SAHDiphthine synthase / 1.059
2e07 SAHDiphthine synthase / 1.059
2e7r SAHDiphthine synthase / 1.059
2ed5 SAHDiphthine synthase / 1.059
2egb SAHDiphthine synthase / 1.059
2eld SAHDiphthine synthase / 1.059
2z6r SAHDiphthine synthase / 1.059
2dv7 SAHDiphthine synthase / 1.058
2egl SAHDiphthine synthase / 1.058
2ek2 SAHDiphthine synthase / 1.057
2eeq SAHDiphthine synthase / 1.056
2egs SAHDiphthine synthase / 1.054
2el0 SAHDiphthine synthase / 1.053
2e8h SAHDiphthine synthase / 1.052
1wng SAHDiphthine synthase / 1.051
2huv SAHDiphthine synthase / 1.051
2p5c SAHDiphthine synthase / 1.049
2eh2 SAHDiphthine synthase / 1.048
2ejj SAHDiphthine synthase / 1.043
2dsi SAHDiphthine synthase / 1.040
2pch SAHDiphthine synthase / 1.040
2pci SAHDiphthine synthase / 1.035
1vce SAHDiphthine synthase / 1.031
2e8q SAHDiphthine synthase / 1.023
2ejk SAHDiphthine synthase / 1.022
2huq SAHDiphthine synthase / 1.020
2hut SAHDiphthine synthase / 1.014
2p2x SAHDiphthine synthase / 1.009
2owu SAHDiphthine synthase / 1.008
2owv SAHDiphthine synthase / 0.983
2hux SAHDiphthine synthase / 0.940
2hr8 SAHDiphthine synthase / 0.889
2ejz SAHDiphthine synthase / 0.826
2owf SAHDiphthine synthase / 0.730
2ed3 SAHDiphthine synthase / 0.707
4l2i FADElectron transfer flavoprotein alpha/beta-subunit / 0.701
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.692
3s3t ATPUniversal stress protein / 0.689
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.685
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.678
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.673
4cnf MTASpoU rRNA methylase / 0.669
2zvb SAHPrecorrin-3 C17-methyltransferase / 0.667
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.664
2p0a ANPSynapsin-3 / 0.663
4ypa SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.662
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.661
4x3l MTARNA 2'-O ribose methyltransferase / 0.659
4u0o MTALipoyl synthase 2 / 0.657
4fak SAMRibosomal RNA large subunit methyltransferase H / 0.656
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.656
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.654
2egw SAHRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.651