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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
1bws NDP GDP-L-fucose synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1bws NDPGDP-L-fucose synthase / 1.095
1e7q NAPGDP-L-fucose synthase / 0.836
1fxs NAPGDP-L-fucose synthase / 0.822
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.737
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.727
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.716
2pk3 A2RGDP-6-deoxy-D-mannose reductase / 0.706
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.705
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.700
1bsv NDPGDP-L-fucose synthase / 0.696
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.691
5jyd NADShort chain dehydrogenase / 0.690
3aw9 NADNAD-dependent epimerase/dehydratase / 0.687
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.686
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.685
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.677
2ggs NDPdTDP-4-dehydrorhamnose reductase / 0.677
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.677
3uxy NADShort-chain dehydrogenase/reductase SDR / 0.676
4e5y NDPGDP-L-fucose synthase 1.1.1.271 0.674
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.673
3f1k NAPUncharacterized oxidoreductase YciK 1 0.673
1b16 NAQAlcohol dehydrogenase 1.1.1.1 0.672
1g1a NADdTDP-glucose 4,6-dehydratase / 0.672
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.672
2ekp NAD2-deoxy-D-gluconate 3-dehydrogenase / 0.668
3ko8 NADNAD-dependent epimerase/dehydratase / 0.667
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.667
2x0i NAIMalate dehydrogenase / 0.665
2yut NAPPutative short-chain oxidoreductase / 0.665
3d3w NAPL-xylulose reductase 1.1.1.10 0.665
2cvz NDP3-hydroxyisobutyrate dehydrogenase / 0.664
4tqg NDPPutative dTDP-d-glucose 4 6-dehydratase / 0.664
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.663
4o1m NADEnoyl-acyl carrier reductase / 0.662
2ztu NADD(-)-3-hydroxybutyrate dehydrogenase / 0.661
2ph5 NADHomospermidine synthase / 0.660
5lc1 NADL-threonine 3-dehydrogenase / 0.660
4id9 NADPutative UDP-glucose 4-epimerase / 0.659
1w8d NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.657
2ieb ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.657
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.657
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.657
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.657
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.657
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.657
3jyo NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.656
3r3s NADPutative oxidoreductase / 0.656
1cyd NDPCarbonyl reductase [NADPH] 2 1.1.1.184 0.655
3mje NDPAmphB / 0.655
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.655
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.654
5bsg NAPPyrroline-5-carboxylate reductase / 0.654
1kc1 NDPdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.653
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.653
4b79 NADProbable short-chain dehydrogenase / 0.653
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.652
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.651
3ijr NADOxidoreductase, short chain dehydrogenase/reductase family / 0.651
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.651
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.650