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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
2emr SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2emr SAHDiphthine synthase / 1.119
2eh4 SAHDiphthine synthase / 1.115
2pb5 SAHDiphthine synthase / 1.114
2pcg SAHDiphthine synthase / 1.114
2e8s SAHDiphthine synthase / 1.113
2ek4 SAHDiphthine synthase / 1.113
2eka SAHDiphthine synthase / 1.113
2en5 SAHDiphthine synthase / 1.113
2eh5 SAHDiphthine synthase / 1.112
2e8r SAHDiphthine synthase / 1.111
2el3 SAHDiphthine synthase / 1.111
2pb6 SAHDiphthine synthase / 1.109
2p6d SAHDiphthine synthase / 1.103
2ele SAHDiphthine synthase / 1.097
2pca SAHDiphthine synthase / 1.097
2dxx SAHDiphthine synthase / 1.095
2e4n SAHDiphthine synthase / 1.095
2ed5 SAHDiphthine synthase / 1.095
2eld SAHDiphthine synthase / 1.095
2p5f SAHDiphthine synthase / 1.095
2p9d SAHDiphthine synthase / 1.095
2ek2 SAHDiphthine synthase / 1.094
2ek7 SAHDiphthine synthase / 1.094
2eni SAHDiphthine synthase / 1.094
2pcm SAHDiphthine synthase / 1.094
2dv3 SAHDiphthine synthase / 1.093
2p6k SAHDiphthine synthase / 1.093
2p6l SAHDiphthine synthase / 1.092
2pck SAHDiphthine synthase / 1.092
2ek3 SAHDiphthine synthase / 1.091
2owg SAHDiphthine synthase / 1.088
2dxw SAHDiphthine synthase / 1.076
2egs SAHDiphthine synthase / 1.076
2eh2 SAHDiphthine synthase / 1.076
2pch SAHDiphthine synthase / 1.076
2dv5 SAHDiphthine synthase / 1.075
2e08 SAHDiphthine synthase / 1.075
2e8h SAHDiphthine synthase / 1.075
2el0 SAHDiphthine synthase / 1.075
2owk SAHDiphthine synthase / 1.075
2p6i SAHDiphthine synthase / 1.075
2e17 SAHDiphthine synthase / 1.074
1wng SAHDiphthine synthase / 1.073
2eeq SAHDiphthine synthase / 1.073
2huq SAHDiphthine synthase / 1.073
2huv SAHDiphthine synthase / 1.073
2pb4 SAHDiphthine synthase / 1.073
2owv SAHDiphthine synthase / 1.070
2p5c SAHDiphthine synthase / 1.069
2e8q SAHDiphthine synthase / 1.060
2ehl SAHDiphthine synthase / 1.059
2dxv SAHDiphthine synthase / 1.058
2e07 SAHDiphthine synthase / 1.058
2e7r SAHDiphthine synthase / 1.058
2egb SAHDiphthine synthase / 1.058
2z6r SAHDiphthine synthase / 1.058
2ejj SAHDiphthine synthase / 1.057
2ejk SAHDiphthine synthase / 1.057
2dsg SAHDiphthine synthase / 1.056
2dsh SAHDiphthine synthase / 1.056
2dv7 SAHDiphthine synthase / 1.056
2e15 SAHDiphthine synthase / 1.056
2egl SAHDiphthine synthase / 1.056
2hut SAHDiphthine synthase / 1.056
2dek SAHDiphthine synthase / 1.055
2e16 SAHDiphthine synthase / 1.054
2owu SAHDiphthine synthase / 1.054
2dsi SAHDiphthine synthase / 1.041
2dv4 SAHDiphthine synthase / 1.036
2emu SAHDiphthine synthase / 1.036
2p2x SAHDiphthine synthase / 1.020
2pci SAHDiphthine synthase / 1.011
1vce SAHDiphthine synthase / 1.004
2hux SAHDiphthine synthase / 0.971
2hr8 SAHDiphthine synthase / 0.927
2ejz SAHDiphthine synthase / 0.740
2owf SAHDiphthine synthase / 0.740
2ed3 SAHDiphthine synthase / 0.712
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.694
4x3l MTARNA 2'-O ribose methyltransferase / 0.691
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.690
2ha8 SAHProbable methyltransferase TARBP1 / 0.682
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.680
3s3t ATPUniversal stress protein / 0.677
3hgm ATPTRAP-T-associated universal stress protein TeaD / 0.675
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.674
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.671
4rr8 A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.670
1mbz IOTCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.667
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.667
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.664
1kp3 ATPArgininosuccinate synthase 6.3.4.5 0.659
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.658
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.656
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.655
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.654
4rrb A3TProbable threonine--tRNA ligase 2 6.1.1.3 0.654
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.653
1kp2 ATPArgininosuccinate synthase 6.3.4.5 0.652
4fak SAMRibosomal RNA large subunit methyltransferase H / 0.652
4rrh A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.651
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.650
2egw SAHRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.650
4rrl A3SProbable threonine--tRNA ligase 2 6.1.1.3 0.650