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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
2p5c SAH Diphthine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2p5c SAHDiphthine synthase / 1.102
2ejk SAHDiphthine synthase / 1.081
2pb6 SAHDiphthine synthase / 1.079
2p5f SAHDiphthine synthase / 1.076
2p6d SAHDiphthine synthase / 1.076
2ed5 SAHDiphthine synthase / 1.072
2eh5 SAHDiphthine synthase / 1.072
2dsi SAHDiphthine synthase / 1.071
2dv5 SAHDiphthine synthase / 1.071
2pca SAHDiphthine synthase / 1.071
2eld SAHDiphthine synthase / 1.070
2emr SAHDiphthine synthase / 1.069
2en5 SAHDiphthine synthase / 1.069
2eni SAHDiphthine synthase / 1.069
2el0 SAHDiphthine synthase / 1.066
2dv3 SAHDiphthine synthase / 1.065
2pb5 SAHDiphthine synthase / 1.060
2pb4 SAHDiphthine synthase / 1.058
2e8r SAHDiphthine synthase / 1.057
2e16 SAHDiphthine synthase / 1.056
2p6k SAHDiphthine synthase / 1.055
2pcg SAHDiphthine synthase / 1.055
2pch SAHDiphthine synthase / 1.054
1vce SAHDiphthine synthase / 1.053
2eeq SAHDiphthine synthase / 1.053
2e08 SAHDiphthine synthase / 1.052
2egs SAHDiphthine synthase / 1.052
2ele SAHDiphthine synthase / 1.051
2e4n SAHDiphthine synthase / 1.050
2egl SAHDiphthine synthase / 1.049
2ek2 SAHDiphthine synthase / 1.049
2owg SAHDiphthine synthase / 1.049
2pck SAHDiphthine synthase / 1.049
1wng SAHDiphthine synthase / 1.048
2dv7 SAHDiphthine synthase / 1.048
2e15 SAHDiphthine synthase / 1.047
2el3 SAHDiphthine synthase / 1.043
2ek4 SAHDiphthine synthase / 1.041
2e8s SAHDiphthine synthase / 1.040
2eh4 SAHDiphthine synthase / 1.040
2ek7 SAHDiphthine synthase / 1.040
2emu SAHDiphthine synthase / 1.040
2p9d SAHDiphthine synthase / 1.040
2eka SAHDiphthine synthase / 1.038
2p6l SAHDiphthine synthase / 1.038
2dv4 SAHDiphthine synthase / 1.037
2dxx SAHDiphthine synthase / 1.037
2ek3 SAHDiphthine synthase / 1.037
2owk SAHDiphthine synthase / 1.037
2pcm SAHDiphthine synthase / 1.036
2e07 SAHDiphthine synthase / 1.034
2e7r SAHDiphthine synthase / 1.034
2egb SAHDiphthine synthase / 1.034
2dxw SAHDiphthine synthase / 1.033
2e8h SAHDiphthine synthase / 1.033
2dsg SAHDiphthine synthase / 1.032
2dsh SAHDiphthine synthase / 1.031
2e17 SAHDiphthine synthase / 1.031
2owu SAHDiphthine synthase / 1.028
2huv SAHDiphthine synthase / 1.024
2e8q SAHDiphthine synthase / 1.020
2dxv SAHDiphthine synthase / 1.019
2ehl SAHDiphthine synthase / 1.019
2z6r SAHDiphthine synthase / 1.017
2dek SAHDiphthine synthase / 1.014
2huq SAHDiphthine synthase / 1.009
2eh2 SAHDiphthine synthase / 1.006
2hut SAHDiphthine synthase / 1.005
2p6i SAHDiphthine synthase / 1.005
2ejj SAHDiphthine synthase / 1.001
2owv SAHDiphthine synthase / 0.999
2p2x SAHDiphthine synthase / 0.986
2hux SAHDiphthine synthase / 0.959
2pci SAHDiphthine synthase / 0.937
2hr8 SAHDiphthine synthase / 0.913
2ejz SAHDiphthine synthase / 0.876
2owf SAHDiphthine synthase / 0.780
2ed3 SAHDiphthine synthase / 0.725
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.687
2ha8 SAHProbable methyltransferase TARBP1 / 0.677
3hgm ATPTRAP-T-associated universal stress protein TeaD / 0.675
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.674
1kp2 ATPArgininosuccinate synthase 6.3.4.5 0.669
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.668
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.665
4rrm A3TProbable threonine--tRNA ligase 2 6.1.1.3 0.665
2qbu SAHPrecorrin-2 methyltransferase / 0.664
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.664
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.663
1mjh ATPUniversal stress protein MJ0577 / 0.662
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.660
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.660
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.659
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.659
3nut SAHPrecorrin-3 methylase / 0.658
4x3l MTARNA 2'-O ribose methyltransferase / 0.657
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.656
2zvb SAHPrecorrin-3 C17-methyltransferase / 0.655
2egw SAHRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.654
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.653
1j21 ATPArgininosuccinate synthase / 0.652
4rrb A3TProbable threonine--tRNA ligase 2 6.1.1.3 0.652
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.651
2yy8 MTAtRNA (cytidine(56)-2'-O)-methyltransferase / 0.651
3zu0 A12NAD 5'-nucleotidase 3.1.3.5 0.651