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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
2p5f SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2p5f SAHDiphthine synthase / 1.105
2pb5 SAHDiphthine synthase / 1.098
2eh5 SAHDiphthine synthase / 1.097
2e8r SAHDiphthine synthase / 1.096
2el3 SAHDiphthine synthase / 1.096
2emr SAHDiphthine synthase / 1.095
2pca SAHDiphthine synthase / 1.095
2e8s SAHDiphthine synthase / 1.094
2eh4 SAHDiphthine synthase / 1.094
2ek4 SAHDiphthine synthase / 1.094
2pcg SAHDiphthine synthase / 1.094
2ek2 SAHDiphthine synthase / 1.093
2eka SAHDiphthine synthase / 1.093
2en5 SAHDiphthine synthase / 1.093
2p6d SAHDiphthine synthase / 1.088
2dv5 SAHDiphthine synthase / 1.082
2pb6 SAHDiphthine synthase / 1.082
2ed5 SAHDiphthine synthase / 1.081
2p9d SAHDiphthine synthase / 1.080
2ek7 SAHDiphthine synthase / 1.079
2eld SAHDiphthine synthase / 1.079
2eni SAHDiphthine synthase / 1.079
2pcm SAHDiphthine synthase / 1.079
2eeq SAHDiphthine synthase / 1.078
2p6k SAHDiphthine synthase / 1.078
2e8h SAHDiphthine synthase / 1.077
2egs SAHDiphthine synthase / 1.077
2el0 SAHDiphthine synthase / 1.077
2p6l SAHDiphthine synthase / 1.077
2dxx SAHDiphthine synthase / 1.076
2ek3 SAHDiphthine synthase / 1.076
2ele SAHDiphthine synthase / 1.076
2p5c SAHDiphthine synthase / 1.076
2dv3 SAHDiphthine synthase / 1.075
2e4n SAHDiphthine synthase / 1.075
2owg SAHDiphthine synthase / 1.073
2pck SAHDiphthine synthase / 1.073
1wng SAHDiphthine synthase / 1.072
2huv SAHDiphthine synthase / 1.072
2e08 SAHDiphthine synthase / 1.065
2ejk SAHDiphthine synthase / 1.065
2e16 SAHDiphthine synthase / 1.064
2pch SAHDiphthine synthase / 1.063
2eh2 SAHDiphthine synthase / 1.062
2dsg SAHDiphthine synthase / 1.061
2owk SAHDiphthine synthase / 1.061
2pb4 SAHDiphthine synthase / 1.061
2ejj SAHDiphthine synthase / 1.060
2p6i SAHDiphthine synthase / 1.060
2e07 SAHDiphthine synthase / 1.059
2e7r SAHDiphthine synthase / 1.059
2egb SAHDiphthine synthase / 1.059
2owv SAHDiphthine synthase / 1.059
2dek SAHDiphthine synthase / 1.058
2dv7 SAHDiphthine synthase / 1.058
2dxv SAHDiphthine synthase / 1.058
2egl SAHDiphthine synthase / 1.058
2ehl SAHDiphthine synthase / 1.058
2dxw SAHDiphthine synthase / 1.057
2owu SAHDiphthine synthase / 1.057
2z6r SAHDiphthine synthase / 1.057
1vce SAHDiphthine synthase / 1.056
2dsh SAHDiphthine synthase / 1.056
2e15 SAHDiphthine synthase / 1.056
2e17 SAHDiphthine synthase / 1.055
2huq SAHDiphthine synthase / 1.053
2e8q SAHDiphthine synthase / 1.045
2dv4 SAHDiphthine synthase / 1.044
2emu SAHDiphthine synthase / 1.042
2dsi SAHDiphthine synthase / 1.036
2hut SAHDiphthine synthase / 1.022
2p2x SAHDiphthine synthase / 1.019
2pci SAHDiphthine synthase / 0.995
2hux SAHDiphthine synthase / 0.960
2hr8 SAHDiphthine synthase / 0.862
2ejz SAHDiphthine synthase / 0.762
2owf SAHDiphthine synthase / 0.750
2ed3 SAHDiphthine synthase / 0.719
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.679
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.676
2ha8 SAHProbable methyltransferase TARBP1 / 0.672
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.671
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.667
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.665
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.664
1id0 ANPSensor protein PhoQ 2.7.13.3 0.660
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.660
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.657
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.657
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.655
2bb3 SAHCobalamin biosynthesis precorrin-6Y methylase (CbiE) / 0.654
4rr7 A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.653
3ab8 ATPUncharacterized protein / 0.652
3s3t ATPUniversal stress protein / 0.652
4rrh A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.651
5jhn SAMHistone-lysine N-methyltransferase EHMT2 / 0.651
4rrl A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.650