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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
4y6n UPG Glucosyl-3-phosphoglycerate synthase 2.4.1.266

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4y6n UPGGlucosyl-3-phosphoglycerate synthase 2.4.1.266 1.359
4y6u UPGGlucosyl-3-phosphoglycerate synthase 2.4.1.266 1.153
4y9x UPGGlucosyl-3-phosphoglycerate synthase 2.4.1.266 1.104
3ckq UPGGlucosyl-3-phosphoglycerate synthase 2.4.1.266 0.962
3o3p GDDGlycosyl transferase, family 2 / 0.809
2bo8 GDXMannosylglycerate synthase / 0.776
2y4l GDPUncharacterized protein / 0.766
2wvm GDDMannosyl-3-phosphogylcerate synthase / 0.742
1foa UD1Alpha-1,3-mannosyl-glycoprotein 2-beta-N-acetylglucosaminyltransferase 2.4.1.101 0.713
4avl TMPPolymerase acidic protein / 0.703
2y4k GDPUncharacterized protein / 0.688
2wvl GDDMannosyl-3-phosphogylcerate synthase / 0.682
3juk UPGUTP--glucose-1-phosphate uridylyltransferase / 0.670
4ee3 UDHBeta-1,4-galactosyltransferase 1 / 0.665
2w5a ADPSerine/threonine-protein kinase Nek2 2.7.11.1 0.660
1oqm UD2Beta-1,4-galactosyltransferase 1 / 0.652
5c1o ANPD-alanine--D-alanine ligase / 0.652
5ccy TMPPolymerase acidic protein / 0.651