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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
4e5y NDP GDP-L-fucose synthase 1.1.1.271

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4e5y NDPGDP-L-fucose synthase 1.1.1.271 1.232
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.855
4b8w NAPGDP-L-fucose synthase 1.1.1.271 0.794
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.752
4u7w NDPMxaA / 0.743
4b79 NADProbable short-chain dehydrogenase / 0.737
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.736
2c29 NAPDihydroflavonol 4-reductase / 0.732
2ggs NDPdTDP-4-dehydrorhamnose reductase / 0.728
3g49 NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.728
2jcx NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.725
2jcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.720
2hrb NAPCarbonyl reductase [NADPH] 3 1.1.1.184 0.712
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.712
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.711
3h4v NAPPteridine reductase 1 1.5.1.33 0.711
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.710
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.709
1w73 NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.708
1oaa NAPSepiapterin reductase 1.1.1.153 0.706
2p5y NADUDP-glucose 4-epimerase / 0.705
4aic NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.705
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.704
3wmx NADNAD dependent epimerase/dehydratase / 0.704
2wyv NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.703
3bmo NAPPteridine reductase / 0.703
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.702
4clo NAPPteridine reductase / 0.702
1sny NAPLD36273p / 0.699
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.699
2pk3 A2RGDP-6-deoxy-D-mannose reductase / 0.699
3gy0 NAPNAD(P)-dependent oxidoreductase / 0.699
4tqg NDPPutative dTDP-d-glucose 4 6-dehydratase / 0.699
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.698
3au8 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.697
5bt9 NAP3-oxoacyl-(Acyl-carrier-protein) reductase / 0.696
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.695
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.692
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.691
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.691
4gae NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.690
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.690
4hbg NDP3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.689
3d3w NAPL-xylulose reductase 1.1.1.10 0.688
3ko8 NADNAD-dependent epimerase/dehydratase / 0.688
3uce NDPDehydrogenase / 0.688
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.687
4cql NADEstradiol 17-beta-dehydrogenase 8 1.1.1.62 0.687
4l4x NDPAmphI / 0.686
2bfo NDPPteridine reductase 1 1.5.1.33 0.685
3p19 NDPPutative blue fluorescent protein / 0.685
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.685
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.685
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.684
3icp NADNAD-dependent epimerase/dehydratase / 0.684
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.683
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.683
3rue NADUDP-N-acetylglucosamine 4-epimerase / 0.683
1rwb NADGlucose 1-dehydrogenase 1.1.1.47 0.681
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.680
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.680
1rpn NDPGDP-mannose 4,6-dehydratase / 0.679
1zem NADXylitol dehydrogenase / 0.679
4dmm NAP3-oxoacyl-[acyl-carrier-protein] reductase / 0.679
2q2v NADBeta-D-hydroxybutyrate dehydrogenase / 0.677
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.677
4j7x NAPSepiapterin reductase 1.1.1.153 0.677
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.676
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.676
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.676
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.675
1bws NDPGDP-L-fucose synthase / 0.674
1wvg APRCDP-glucose 4,6-dehydratase 4.2.1.45 0.674
2ydx NAPMethionine adenosyltransferase 2 subunit beta / 0.674
4b4o NDPEpimerase family protein SDR39U1 / 0.674
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.674
4rcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.674
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.673
3sx2 NADUncharacterized protein / 0.673
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.671
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.671
4egb NADdTDP-glucose 4,6-dehydratase / 0.671
2jd0 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.670
2yy7 NADL-threonine dehydrogenase / 0.670
4id9 NADPutative UDP-glucose 4-epimerase / 0.670
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.669
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.669
2jd1 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.669
3ras NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.669
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.669
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.668
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.667
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.667
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.666
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.666
4wec NADShort chain dehydrogenase / 0.666
2z95 NDPGDP-mannose 4,6-dehydratase / 0.665
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.665
1ipe NDPTropinone reductase 2 1.1.1.236 0.664
4pvd NDPNADPH-dependent methylglyoxal reductase GRE2 / 0.664
5koi NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.664
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.663
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.663
3tn7 NJPShort-chain alcohol dehydrogenase / 0.663
4lk3 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.663
3s55 NADPutative short-chain dehydrogenase/reductase / 0.662
4zju NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.662
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.661
4eso NAPPutative oxidoreductase / 0.661
1e7y NDPGlucose-6-phosphate 1-dehydrogenase / 0.660
5idw NAPShort-chain dehydrogenase/reductase SDR / 0.660
1g1a NADdTDP-glucose 4,6-dehydratase / 0.659
4ej0 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.659
2jah NDPClavaldehyde dehydrogenase / 0.658
2x86 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.658
3aw9 NADNAD-dependent epimerase/dehydratase / 0.658
4idg NADPutative UDP-glucose 4-epimerase / 0.658
4j7u NAPSepiapterin reductase 1.1.1.153 0.657
4imp NDPPolyketide synthase extender modules 3-4 / 0.656
2b4q NAPRhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.655
4fc7 NAPPeroxisomal 2,4-dienoyl-CoA reductase 1.3.1.34 0.655
4hxy NDPPlm1 / 0.655
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.654
1edo NAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic 1.1.1.100 0.653
2cvz NDP3-hydroxyisobutyrate dehydrogenase / 0.653
4yr9 NADL-threonine 3-dehydrogenase, mitochondrial 1.1.1.103 0.653
1hdo NAPFlavin reductase (NADPH) / 0.652
3of2 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.652
4kwh NAPReductase homolog / 0.652
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.651
2x6t NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.651
1p44 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.650
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.650