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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
2dsh SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2dsh SAHDiphthine synthase / 1.104
2dsg SAHDiphthine synthase / 1.100
2e16 SAHDiphthine synthase / 1.099
2dv5 SAHDiphthine synthase / 1.093
2e17 SAHDiphthine synthase / 1.084
2dv7 SAHDiphthine synthase / 1.082
2dxv SAHDiphthine synthase / 1.082
2e08 SAHDiphthine synthase / 1.081
2e15 SAHDiphthine synthase / 1.081
2ejj SAHDiphthine synthase / 1.079
2eeq SAHDiphthine synthase / 1.078
2egs SAHDiphthine synthase / 1.078
2p6l SAHDiphthine synthase / 1.078
2p6k SAHDiphthine synthase / 1.077
2dv3 SAHDiphthine synthase / 1.076
2e8r SAHDiphthine synthase / 1.074
1wng SAHDiphthine synthase / 1.073
2pb6 SAHDiphthine synthase / 1.073
2huv SAHDiphthine synthase / 1.071
2owk SAHDiphthine synthase / 1.065
2dv4 SAHDiphthine synthase / 1.064
2egb SAHDiphthine synthase / 1.064
2dxw SAHDiphthine synthase / 1.063
2e07 SAHDiphthine synthase / 1.063
2e7r SAHDiphthine synthase / 1.063
2egl SAHDiphthine synthase / 1.063
2ehl SAHDiphthine synthase / 1.063
2dsi SAHDiphthine synthase / 1.062
2dxx SAHDiphthine synthase / 1.062
2eh2 SAHDiphthine synthase / 1.062
2p6i SAHDiphthine synthase / 1.062
2pck SAHDiphthine synthase / 1.062
2z6r SAHDiphthine synthase / 1.062
2ek7 SAHDiphthine synthase / 1.061
2e4n SAHDiphthine synthase / 1.060
2ele SAHDiphthine synthase / 1.060
2p9d SAHDiphthine synthase / 1.060
2eni SAHDiphthine synthase / 1.059
2pcm SAHDiphthine synthase / 1.059
2ed5 SAHDiphthine synthase / 1.058
2dek SAHDiphthine synthase / 1.057
2eh4 SAHDiphthine synthase / 1.057
2ek4 SAHDiphthine synthase / 1.057
2el0 SAHDiphthine synthase / 1.057
2emu SAHDiphthine synthase / 1.057
2pca SAHDiphthine synthase / 1.057
2e8s SAHDiphthine synthase / 1.056
2ek3 SAHDiphthine synthase / 1.056
2eld SAHDiphthine synthase / 1.056
2emr SAHDiphthine synthase / 1.056
2en5 SAHDiphthine synthase / 1.056
2p5f SAHDiphthine synthase / 1.056
2pb5 SAHDiphthine synthase / 1.056
2pcg SAHDiphthine synthase / 1.056
2ek2 SAHDiphthine synthase / 1.055
2eh5 SAHDiphthine synthase / 1.054
2eka SAHDiphthine synthase / 1.054
2el3 SAHDiphthine synthase / 1.054
2p6d SAHDiphthine synthase / 1.054
1vce SAHDiphthine synthase / 1.052
2pb4 SAHDiphthine synthase / 1.052
2ejk SAHDiphthine synthase / 1.051
2p2x SAHDiphthine synthase / 1.048
2owu SAHDiphthine synthase / 1.044
2pch SAHDiphthine synthase / 1.040
2e8h SAHDiphthine synthase / 1.034
2huq SAHDiphthine synthase / 1.034
2owg SAHDiphthine synthase / 1.034
2p5c SAHDiphthine synthase / 1.031
2e8q SAHDiphthine synthase / 1.025
2owv SAHDiphthine synthase / 1.022
2hut SAHDiphthine synthase / 1.015
2pci SAHDiphthine synthase / 1.006
2hux SAHDiphthine synthase / 0.926
2hr8 SAHDiphthine synthase / 0.884
2ejz SAHDiphthine synthase / 0.871
2owf SAHDiphthine synthase / 0.753
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.706
2ed3 SAHDiphthine synthase / 0.706
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.703
2qbu SAHPrecorrin-2 methyltransferase / 0.699
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.692
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.690
3s3t ATPUniversal stress protein / 0.688
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.685
2hma SAMtRNA-specific 2-thiouridylase MnmA / 0.676
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.673
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.673
2ha8 SAHProbable methyltransferase TARBP1 / 0.671
4x3l MTARNA 2'-O ribose methyltransferase / 0.671
4cnf MTASpoU rRNA methylase / 0.667
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.664
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.663
2hen ADPEphrin type-B receptor 2 2.7.10.1 0.661
4ypa SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.661
4s33 ANPMitogen-activated protein kinase 1 2.7.11.24 0.660
2egw SAHRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.659
1kh3 ANPArgininosuccinate synthase / 0.658
3n4k SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.657
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.655
4fak SAMRibosomal RNA large subunit methyltransferase H / 0.654
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.650