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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
2dv7 SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2dv7 SAHDiphthine synthase / 1.088
2dxv SAHDiphthine synthase / 1.083
2dsh SAHDiphthine synthase / 1.082
2e08 SAHDiphthine synthase / 1.081
2dsg SAHDiphthine synthase / 1.080
2e16 SAHDiphthine synthase / 1.080
2egs SAHDiphthine synthase / 1.078
2dv3 SAHDiphthine synthase / 1.077
2dv5 SAHDiphthine synthase / 1.075
2dsi SAHDiphthine synthase / 1.074
2e17 SAHDiphthine synthase / 1.065
2owk SAHDiphthine synthase / 1.065
2e07 SAHDiphthine synthase / 1.064
2e7r SAHDiphthine synthase / 1.064
2egb SAHDiphthine synthase / 1.064
2egl SAHDiphthine synthase / 1.064
2dxw SAHDiphthine synthase / 1.063
2ehl SAHDiphthine synthase / 1.063
2dxx SAHDiphthine synthase / 1.062
2e15 SAHDiphthine synthase / 1.062
2eni SAHDiphthine synthase / 1.062
2e4n SAHDiphthine synthase / 1.061
2ek7 SAHDiphthine synthase / 1.061
2ele SAHDiphthine synthase / 1.061
2dv4 SAHDiphthine synthase / 1.060
2p6k SAHDiphthine synthase / 1.060
2p9d SAHDiphthine synthase / 1.060
2el0 SAHDiphthine synthase / 1.059
2pcm SAHDiphthine synthase / 1.059
2ed5 SAHDiphthine synthase / 1.058
2eeq SAHDiphthine synthase / 1.058
2eld SAHDiphthine synthase / 1.058
2p5f SAHDiphthine synthase / 1.058
2p6l SAHDiphthine synthase / 1.058
2pck SAHDiphthine synthase / 1.058
2eh4 SAHDiphthine synthase / 1.057
2pca SAHDiphthine synthase / 1.057
2pcg SAHDiphthine synthase / 1.057
2eh5 SAHDiphthine synthase / 1.056
2ejk SAHDiphthine synthase / 1.056
2ek2 SAHDiphthine synthase / 1.056
2emr SAHDiphthine synthase / 1.056
2en5 SAHDiphthine synthase / 1.056
2pb5 SAHDiphthine synthase / 1.056
2e8r SAHDiphthine synthase / 1.055
2eka SAHDiphthine synthase / 1.055
2el3 SAHDiphthine synthase / 1.054
2pb6 SAHDiphthine synthase / 1.054
2ejj SAHDiphthine synthase / 1.050
2p5c SAHDiphthine synthase / 1.048
2p6i SAHDiphthine synthase / 1.048
2z6r SAHDiphthine synthase / 1.047
2owu SAHDiphthine synthase / 1.046
1wng SAHDiphthine synthase / 1.043
2e8s SAHDiphthine synthase / 1.042
2ek3 SAHDiphthine synthase / 1.042
2ek4 SAHDiphthine synthase / 1.042
2pch SAHDiphthine synthase / 1.041
2emu SAHDiphthine synthase / 1.040
1vce SAHDiphthine synthase / 1.038
2e8h SAHDiphthine synthase / 1.035
2pb4 SAHDiphthine synthase / 1.034
2eh2 SAHDiphthine synthase / 1.033
2e8q SAHDiphthine synthase / 1.025
2huq SAHDiphthine synthase / 1.020
2p6d SAHDiphthine synthase / 1.020
2owg SAHDiphthine synthase / 1.019
2owv SAHDiphthine synthase / 1.018
2hut SAHDiphthine synthase / 1.014
2dek SAHDiphthine synthase / 1.012
2huv SAHDiphthine synthase / 1.011
2p2x SAHDiphthine synthase / 0.983
2pci SAHDiphthine synthase / 0.960
2hux SAHDiphthine synthase / 0.926
2hr8 SAHDiphthine synthase / 0.854
2ejz SAHDiphthine synthase / 0.823
2owf SAHDiphthine synthase / 0.772
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.718
2ed3 SAHDiphthine synthase / 0.702
2zvb SAHPrecorrin-3 C17-methyltransferase / 0.698
4kpu FADElectron transfer flavoprotein alpha/beta-subunit / 0.692
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.691
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.677
2hma SAMtRNA-specific 2-thiouridylase MnmA / 0.676
2ha8 SAHProbable methyltransferase TARBP1 / 0.674
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.674
3s3t ATPUniversal stress protein / 0.672
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.668
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.666
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.666
4ypa SAMHistone-lysine N-methyltransferase ASH1L 2.1.1.43 0.665
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.663
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.662
4s33 ANPMitogen-activated protein kinase 1 2.7.11.24 0.659
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.655
1jbp ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.655
4fak SAMRibosomal RNA large subunit methyltransferase H / 0.654
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.652
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.650