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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
2ejk SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2ejk SAHDiphthine synthase / 1.105
2ed5 SAHDiphthine synthase / 1.095
2e8r SAHDiphthine synthase / 1.090
2eld SAHDiphthine synthase / 1.089
2pcg SAHDiphthine synthase / 1.088
2ek2 SAHDiphthine synthase / 1.086
2p5c SAHDiphthine synthase / 1.081
2pb5 SAHDiphthine synthase / 1.081
2pb6 SAHDiphthine synthase / 1.081
2dsi SAHDiphthine synthase / 1.079
2pch SAHDiphthine synthase / 1.078
2pb4 SAHDiphthine synthase / 1.077
2dxx SAHDiphthine synthase / 1.075
2eh5 SAHDiphthine synthase / 1.075
2dv5 SAHDiphthine synthase / 1.074
2eeq SAHDiphthine synthase / 1.072
2el0 SAHDiphthine synthase / 1.072
2dv3 SAHDiphthine synthase / 1.069
1wng SAHDiphthine synthase / 1.068
2el3 SAHDiphthine synthase / 1.065
2p5f SAHDiphthine synthase / 1.065
2en5 SAHDiphthine synthase / 1.062
2eni SAHDiphthine synthase / 1.062
2e08 SAHDiphthine synthase / 1.061
2e16 SAHDiphthine synthase / 1.061
2p6k SAHDiphthine synthase / 1.061
2e8s SAHDiphthine synthase / 1.060
2owk SAHDiphthine synthase / 1.060
2p6l SAHDiphthine synthase / 1.060
2ek4 SAHDiphthine synthase / 1.059
2ek7 SAHDiphthine synthase / 1.059
2emu SAHDiphthine synthase / 1.059
2pca SAHDiphthine synthase / 1.059
2egl SAHDiphthine synthase / 1.058
2eh4 SAHDiphthine synthase / 1.058
2dxv SAHDiphthine synthase / 1.057
2e07 SAHDiphthine synthase / 1.057
2e7r SAHDiphthine synthase / 1.057
2egs SAHDiphthine synthase / 1.057
2emr SAHDiphthine synthase / 1.057
2dv7 SAHDiphthine synthase / 1.056
2dxw SAHDiphthine synthase / 1.056
2e15 SAHDiphthine synthase / 1.056
2ehl SAHDiphthine synthase / 1.056
2eka SAHDiphthine synthase / 1.056
2e17 SAHDiphthine synthase / 1.054
2egb SAHDiphthine synthase / 1.053
2dsg SAHDiphthine synthase / 1.052
2owg SAHDiphthine synthase / 1.052
2dsh SAHDiphthine synthase / 1.051
2e8h SAHDiphthine synthase / 1.051
2p6d SAHDiphthine synthase / 1.047
2p9d SAHDiphthine synthase / 1.047
2e4n SAHDiphthine synthase / 1.043
2dv4 SAHDiphthine synthase / 1.042
1vce SAHDiphthine synthase / 1.040
2eh2 SAHDiphthine synthase / 1.040
2z6r SAHDiphthine synthase / 1.040
2ek3 SAHDiphthine synthase / 1.039
2pci SAHDiphthine synthase / 1.038
2owu SAHDiphthine synthase / 1.035
2dek SAHDiphthine synthase / 1.032
2huv SAHDiphthine synthase / 1.031
2p6i SAHDiphthine synthase / 1.027
2pcm SAHDiphthine synthase / 1.027
2e8q SAHDiphthine synthase / 1.025
2ele SAHDiphthine synthase / 1.024
2pck SAHDiphthine synthase / 1.022
2huq SAHDiphthine synthase / 1.012
2ejj SAHDiphthine synthase / 1.009
2owv SAHDiphthine synthase / 1.003
2hut SAHDiphthine synthase / 0.998
2hux SAHDiphthine synthase / 0.950
2p2x SAHDiphthine synthase / 0.949
2ejz SAHDiphthine synthase / 0.886
2hr8 SAHDiphthine synthase / 0.869
2owf SAHDiphthine synthase / 0.783
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.698
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.695
3hgm ATPTRAP-T-associated universal stress protein TeaD / 0.681
2ybo SAHMethyltransferase / 0.677
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.674
1kor ANPArgininosuccinate synthase / 0.672
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.672
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.670
2ha8 SAHProbable methyltransferase TARBP1 / 0.669
1kp2 ATPArgininosuccinate synthase 6.3.4.5 0.668
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.664
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.663
1id0 ANPSensor protein PhoQ 2.7.13.3 0.662
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.660
4fak SAMRibosomal RNA large subunit methyltransferase H / 0.659
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.659
2qbu SAHPrecorrin-2 methyltransferase / 0.656
2bb3 SAHCobalamin biosynthesis precorrin-6Y methylase (CbiE) / 0.655
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.654
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.653
3ab8 ATPUncharacterized protein / 0.653
4f9a ADPCell division cycle 7-related protein kinase 2.7.11.1 0.653
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.652
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.652
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.651