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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
1sb8 UD2 WbpP

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1sb8 UD2WbpP / 1.456
3ruc UD2UDP-N-acetylglucosamine 4-epimerase / 1.217
3lu1 UD2UDP-N-acetylglucosamine 4-epimerase / 1.048
3ruh UD6UDP-N-acetylglucosamine 4-epimerase / 0.865
1sb9 UPGWbpP / 0.794
1kvu UPGUDP-glucose 4-epimerase 5.1.3.2 0.753
1ek6 UPGUDP-glucose 4-epimerase / 0.742
1xel UPGUDP-glucose 4-epimerase 5.1.3.2 0.741
4zrn UPGUDP-glucose 4-epimerase, putative / 0.741
2pk3 GDDGDP-6-deoxy-D-mannose reductase / 0.739
1wvg CXYCDP-glucose 4,6-dehydratase 4.2.1.45 0.738
1a9z UPGUDP-glucose 4-epimerase 5.1.3.2 0.737
1kvt UPGUDP-glucose 4-epimerase 5.1.3.2 0.733
1udc UFMUDP-glucose 4-epimerase 5.1.3.2 0.710
2c5e GDDGDP-mannose 3,5-epimerase 5.1.3.18 0.705
1a9y UPGUDP-glucose 4-epimerase 5.1.3.2 0.703
1kvs UPGUDP-glucose 4-epimerase 5.1.3.2 0.701
1n7h GDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.701
2gn4 UD1UDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.699
1uda UFGUDP-glucose 4-epimerase 5.1.3.2 0.697
1t2a GDPGDP-mannose 4,6 dehydratase 4.2.1.47 0.680
2udp UPPUDP-glucose 4-epimerase 5.1.3.2 0.673
1i3k UPGUDP-glucose 4-epimerase / 0.671
4lis UPGUDP-glucose 4-epimerase (Eurofung) / 0.671
1lrk UD1UDP-glucose 4-epimerase 5.1.3.2 0.666
1i2c UPGUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.650