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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
2dek SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2dek SAHDiphthine synthase / 1.095
2z6r SAHDiphthine synthase / 1.080
2dxw SAHDiphthine synthase / 1.079
2e07 SAHDiphthine synthase / 1.079
2e7r SAHDiphthine synthase / 1.079
2egb SAHDiphthine synthase / 1.079
2ehl SAHDiphthine synthase / 1.079
2egl SAHDiphthine synthase / 1.078
2e15 SAHDiphthine synthase / 1.077
2el0 SAHDiphthine synthase / 1.073
2owu SAHDiphthine synthase / 1.066
2p6l SAHDiphthine synthase / 1.066
2ek7 SAHDiphthine synthase / 1.064
2owk SAHDiphthine synthase / 1.064
2p9d SAHDiphthine synthase / 1.064
2e08 SAHDiphthine synthase / 1.062
2eh5 SAHDiphthine synthase / 1.062
2el3 SAHDiphthine synthase / 1.062
2hut SAHDiphthine synthase / 1.062
2p6i SAHDiphthine synthase / 1.062
2pcm SAHDiphthine synthase / 1.062
2dxv SAHDiphthine synthase / 1.061
2e4n SAHDiphthine synthase / 1.061
2eh2 SAHDiphthine synthase / 1.061
2p6k SAHDiphthine synthase / 1.061
2dxx SAHDiphthine synthase / 1.060
2e16 SAHDiphthine synthase / 1.060
2ek3 SAHDiphthine synthase / 1.060
2ele SAHDiphthine synthase / 1.060
2pck SAHDiphthine synthase / 1.060
2huv SAHDiphthine synthase / 1.059
2pb5 SAHDiphthine synthase / 1.059
1wng SAHDiphthine synthase / 1.058
2dsg SAHDiphthine synthase / 1.058
2e17 SAHDiphthine synthase / 1.058
2e8r SAHDiphthine synthase / 1.058
2huq SAHDiphthine synthase / 1.058
2p5f SAHDiphthine synthase / 1.058
2dsh SAHDiphthine synthase / 1.057
2egs SAHDiphthine synthase / 1.056
2eh4 SAHDiphthine synthase / 1.056
2en5 SAHDiphthine synthase / 1.056
2pca SAHDiphthine synthase / 1.056
2dv3 SAHDiphthine synthase / 1.055
2ed5 SAHDiphthine synthase / 1.055
2eeq SAHDiphthine synthase / 1.055
2ek2 SAHDiphthine synthase / 1.055
2ek4 SAHDiphthine synthase / 1.055
2emr SAHDiphthine synthase / 1.055
2pcg SAHDiphthine synthase / 1.055
2e8s SAHDiphthine synthase / 1.054
2eka SAHDiphthine synthase / 1.054
2p2x SAHDiphthine synthase / 1.054
2ejj SAHDiphthine synthase / 1.049
2p6d SAHDiphthine synthase / 1.048
2eni SAHDiphthine synthase / 1.047
2e8h SAHDiphthine synthase / 1.045
2owg SAHDiphthine synthase / 1.043
2dv5 SAHDiphthine synthase / 1.040
2pb6 SAHDiphthine synthase / 1.040
2eld SAHDiphthine synthase / 1.039
2owv SAHDiphthine synthase / 1.039
2pch SAHDiphthine synthase / 1.036
2ejk SAHDiphthine synthase / 1.032
2e8q SAHDiphthine synthase / 1.025
1vce SAHDiphthine synthase / 1.023
2pci SAHDiphthine synthase / 1.022
2dv4 SAHDiphthine synthase / 1.020
2emu SAHDiphthine synthase / 1.020
2p5c SAHDiphthine synthase / 1.014
2dv7 SAHDiphthine synthase / 1.012
2dsi SAHDiphthine synthase / 1.004
2pb4 SAHDiphthine synthase / 0.994
2hux SAHDiphthine synthase / 0.960
2hr8 SAHDiphthine synthase / 0.907
2ejz SAHDiphthine synthase / 0.805
2owf SAHDiphthine synthase / 0.758
4l2i FADElectron transfer flavoprotein alpha/beta-subunit / 0.737
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.715
2ed3 SAHDiphthine synthase / 0.704
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.704
2qbu SAHPrecorrin-2 methyltransferase / 0.699
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.689
3s3t ATPUniversal stress protein / 0.682
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.680
3oii SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.678
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.677
4kpu FADElectron transfer flavoprotein alpha/beta-subunit / 0.677
1j21 ATPArgininosuccinate synthase / 0.671
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.671
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.666
1kh2 ATPArgininosuccinate synthase / 0.664
4cnf MTASpoU rRNA methylase / 0.663
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.662
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.661
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.661
1kor ANPArgininosuccinate synthase / 0.658
4s33 ANPMitogen-activated protein kinase 1 2.7.11.24 0.656
2bb3 SAHCobalamin biosynthesis precorrin-6Y methylase (CbiE) / 0.651
4jl8 ADPAdenylate kinase / 0.650