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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
2vd7 PD2 Lysine-specific demethylase 4A 1.14.11

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2vd7 PD2Lysine-specific demethylase 4A 1.14.11 0.803
4lxl PD2Lysine-specific demethylase 4B 1.14.11 0.771
1jsz NDMCap-specific mRNA (nucleoside-2'-O-)-methyltransferase 2.1.1.57 0.744
4gd4 0WSLysine-specific demethylase 4A 1.14.11 0.684
3pdq KC6Lysine-specific demethylase 4A 1.14.11 0.679
4bis 8HQLysine-specific demethylase 4A 1.14.11 0.678
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.671
3k3k A8SAbscisic acid receptor PYR1 / 0.664
2ofi ADK3-methyladenine DNA glycosylase I / 0.660
2e9o A58Serine/threonine-protein kinase Chk1 2.7.11.1 0.659
4d6q PD2Lysine-specific demethylase 4D 1.14.11 0.656
1i7c MGBS-adenosylmethionine decarboxylase proenzyme 4.1.1.50 0.650