Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
3nd1 SAH Precorrin-6A synthase (Deacetylating)

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3nd1 SAHPrecorrin-6A synthase (Deacetylating) / 1.089
2npn SAMPutative cobalamin synthesis related protein / 0.947
3nut SAHPrecorrin-3 methylase / 0.857
1s4d SAHUroporphyrinogen-III C-methyltransferase 2.1.1.107 0.821
2zvc SAHPrecorrin-3 C17-methyltransferase / 0.815
2zvb SAHPrecorrin-3 C17-methyltransferase / 0.814
2qbu SAHPrecorrin-2 methyltransferase / 0.810
2ybo SAHMethyltransferase / 0.794
3ndc SAHPrecorrin-4 C(11)-methyltransferase 2.1.1.133 0.774
1v9a SAHUncharacterized protein / 0.768
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.761
1kor ANPArgininosuccinate synthase / 0.731
1kh2 ATPArgininosuccinate synthase / 0.707
1j21 ATPArgininosuccinate synthase / 0.706
1j1z ATPArgininosuccinate synthase / 0.686
1kh3 ANPArgininosuccinate synthase / 0.686
2hma SAMtRNA-specific 2-thiouridylase MnmA / 0.680
2e0n SAHPrecorrin-2 C20-methyltransferase / 0.679
2bb3 SAHCobalamin biosynthesis precorrin-6Y methylase (CbiE) / 0.672
2pb6 SAHDiphthine synthase / 0.669
1mjh ATPUniversal stress protein MJ0577 / 0.666
2hvd ADPNucleoside diphosphate kinase A 2.7.4.6 0.660
2eni SAHDiphthine synthase / 0.656
3tw6 ADPPyruvate carboxylase / 0.653
3gyq SAM23S rRNA (adenosine(1067)-2'-O)-methyltransferase / 0.652
1kp2 ATPArgininosuccinate synthase 6.3.4.5 0.651