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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
4dsj DGT DNA polymerase I

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4dsj DGTDNA polymerase I / 0.867
1jsz NDMCap-specific mRNA (nucleoside-2'-O-)-methyltransferase 2.1.1.57 0.744
3jqc JU2Pteridine reductase, putative / 0.712
3lzz GDPUncharacterized protein / 0.680
3gcm 5GPPolyribonucleotide nucleotidyltransferase / 0.675
2vcz VC3Hematopoietic prostaglandin D synthase / 0.674
1rae CTPAspartate carbamoyltransferase regulatory chain / 0.668
2ybu CX9Acidic mammalian chitinase 3.2.1.14 0.665
4ra3 TFXBeta-2-microglobulin / 0.661
1c3x 8IGPurine nucleoside phosphorylase 2.4.2.1 0.660
1rzu ADPGlycogen synthase 1 2.4.1.21 0.660
1m2x MCOMetallo-beta-lactamase type 2 / 0.659
1e92 HBIPteridine reductase 1 1.5.1.33 0.658
1raf CTPAspartate carbamoyltransferase regulatory chain / 0.657
4eom ATPCyclin-dependent kinase 2 2.7.11.22 0.656
2oyf IACBasic phospholipase A2 VRV-PL-VIIIa 3.1.1.4 0.654
4ask K0ILysine-specific demethylase 6B 1.14.11 0.653
1i58 ACPChemotaxis protein CheA 2.7.13.3 0.652
1xdq MTEProtein-methionine-sulfoxide reductase catalytic subunit MsrP / 0.652
3wb2 YGPUncharacterized protein MJ0488 / 0.652
1i7c MGBS-adenosylmethionine decarboxylase proenzyme 4.1.1.50 0.651
3q5i ANPProtein kinase, putative / 0.651
3vuz K15Histone-lysine N-methyltransferase SETD7 2.1.1.43 0.651
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.651