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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
2dxv SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2dxv SAHDiphthine synthase / 1.088
2dv7 SAHDiphthine synthase / 1.083
2e08 SAHDiphthine synthase / 1.083
2dsh SAHDiphthine synthase / 1.082
2egs SAHDiphthine synthase / 1.080
2dv3 SAHDiphthine synthase / 1.077
1wng SAHDiphthine synthase / 1.076
2dv5 SAHDiphthine synthase / 1.074
2dsg SAHDiphthine synthase / 1.068
2e07 SAHDiphthine synthase / 1.067
2e17 SAHDiphthine synthase / 1.067
2e7r SAHDiphthine synthase / 1.067
2egb SAHDiphthine synthase / 1.067
2ejj SAHDiphthine synthase / 1.067
2dxw SAHDiphthine synthase / 1.066
2dxx SAHDiphthine synthase / 1.066
2e16 SAHDiphthine synthase / 1.066
2egl SAHDiphthine synthase / 1.066
2ehl SAHDiphthine synthase / 1.066
2e15 SAHDiphthine synthase / 1.065
2eh2 SAHDiphthine synthase / 1.065
2hut SAHDiphthine synthase / 1.065
2owk SAHDiphthine synthase / 1.065
2p6i SAHDiphthine synthase / 1.065
2z6r SAHDiphthine synthase / 1.065
2e4n SAHDiphthine synthase / 1.064
2ek7 SAHDiphthine synthase / 1.063
2p9d SAHDiphthine synthase / 1.063
2ele SAHDiphthine synthase / 1.062
2eni SAHDiphthine synthase / 1.062
2p6k SAHDiphthine synthase / 1.062
2dek SAHDiphthine synthase / 1.061
2p6l SAHDiphthine synthase / 1.061
2dv4 SAHDiphthine synthase / 1.060
2ed5 SAHDiphthine synthase / 1.060
2el0 SAHDiphthine synthase / 1.060
2en5 SAHDiphthine synthase / 1.060
2huv SAHDiphthine synthase / 1.060
2owu SAHDiphthine synthase / 1.060
2pcm SAHDiphthine synthase / 1.060
2eeq SAHDiphthine synthase / 1.059
2eh4 SAHDiphthine synthase / 1.059
2pca SAHDiphthine synthase / 1.059
2pck SAHDiphthine synthase / 1.059
2e8s SAHDiphthine synthase / 1.058
2ek3 SAHDiphthine synthase / 1.058
2ek4 SAHDiphthine synthase / 1.058
2emr SAHDiphthine synthase / 1.058
2p5f SAHDiphthine synthase / 1.058
2pb5 SAHDiphthine synthase / 1.058
2pcg SAHDiphthine synthase / 1.058
2ejk SAHDiphthine synthase / 1.057
2ek2 SAHDiphthine synthase / 1.057
2eld SAHDiphthine synthase / 1.057
2owv SAHDiphthine synthase / 1.057
2e8r SAHDiphthine synthase / 1.056
2eh5 SAHDiphthine synthase / 1.056
2eka SAHDiphthine synthase / 1.056
2el3 SAHDiphthine synthase / 1.056
1vce SAHDiphthine synthase / 1.054
2pb6 SAHDiphthine synthase / 1.054
2p6d SAHDiphthine synthase / 1.051
2dsi SAHDiphthine synthase / 1.043
2pch SAHDiphthine synthase / 1.043
2emu SAHDiphthine synthase / 1.040
2e8h SAHDiphthine synthase / 1.038
2huq SAHDiphthine synthase / 1.037
2owg SAHDiphthine synthase / 1.037
2p2x SAHDiphthine synthase / 1.036
2pb4 SAHDiphthine synthase / 1.034
2pci SAHDiphthine synthase / 1.024
2e8q SAHDiphthine synthase / 1.023
2p5c SAHDiphthine synthase / 1.019
2hux SAHDiphthine synthase / 0.928
2hr8 SAHDiphthine synthase / 0.866
2ejz SAHDiphthine synthase / 0.768
2owf SAHDiphthine synthase / 0.756
2ed3 SAHDiphthine synthase / 0.706
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.705
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.695
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.694
3s3t ATPUniversal stress protein / 0.688
2qbu SAHPrecorrin-2 methyltransferase / 0.687
2ha8 SAHProbable methyltransferase TARBP1 / 0.686
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.684
2hma SAMtRNA-specific 2-thiouridylase MnmA / 0.681
2zvb SAHPrecorrin-3 C17-methyltransferase / 0.672
2egw SAHRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.671
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.663
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.663
3n4k SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.659
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.658
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.656
1jst ATPCyclin-dependent kinase 2 2.7.11.22 0.653
4i0b CMPcAMP-activated global transcriptional regulator CRP / 0.653
4jl8 ADPAdenylate kinase / 0.652
1mbz IOTCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.651