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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
4egb NAD dTDP-glucose 4,6-dehydratase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4egb NADdTDP-glucose 4,6-dehydratase / 1.139
1g1a NADdTDP-glucose 4,6-dehydratase / 0.854
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.818
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.817
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.806
2p5y NADUDP-glucose 4-epimerase / 0.792
3ko8 NADNAD-dependent epimerase/dehydratase / 0.777
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.772
1orr NADCDP-paratose 2-epimerase / 0.769
3aw9 NADNAD-dependent epimerase/dehydratase / 0.769
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.769
1bxk NADdTDP-glucose 4,6-dehydratase 2 / 0.762
4ej0 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.762
2x86 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.761
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.758
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.753
2wsb NADGalactitol dehydrogenase / 0.750
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.745
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.744
4u7w NDPMxaA / 0.742
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.738
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.737
5d2e NAPMlnE / 0.737
3icp NADNAD-dependent epimerase/dehydratase / 0.734
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.733
2yy7 NADL-threonine dehydrogenase / 0.730
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.729
3mje NDPAmphB / 0.727
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.727
1eq2 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.725
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.725
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.724
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.723
3p19 NDPPutative blue fluorescent protein / 0.723
3a9w NADNDP-sugar epimerase / 0.721
1h5q NAPNADP-dependent mannitol dehydrogenase 1.1.1.138 0.715
1zem NADXylitol dehydrogenase / 0.715
4z3d NDPCarbonyl reductase [NADPH] 1 1.1.1.184 0.714
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.713
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.711
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.711
4hxy NDPPlm1 / 0.710
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.709
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.708
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.707
4hb9 FADUncharacterized protein / 0.707
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.706
3ak4 NADNADH-dependent quinuclidinone reductase / 0.705
3wds NADNADH-dependent quinuclidinone reductase / 0.705
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.705
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.704
4pvd NDPNADPH-dependent methylglyoxal reductase GRE2 / 0.704
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.703
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.702
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.702
1i3l NADUDP-glucose 4-epimerase / 0.699
1rwb NADGlucose 1-dehydrogenase 1.1.1.47 0.699
2c29 NAPDihydroflavonol 4-reductase / 0.699
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.699
5jla NADPutative short-chain dehydrogenase/reductase / 0.699
3rue NADUDP-N-acetylglucosamine 4-epimerase / 0.698
1b14 NADAlcohol dehydrogenase 1.1.1.1 0.697
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.697
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.696
4nbw NADShort-chain dehydrogenase/reductase SDR / 0.696
2c20 NADUDP-glucose 4-epimerase / 0.695
3ai3 NDPNADPH-sorbose reductase / 0.695
4b79 NADProbable short-chain dehydrogenase / 0.695
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.694
3ajr NADNDP-sugar epimerase / 0.694
3sx2 NADUncharacterized protein / 0.694
1bdb NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase / 0.693
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.692
2q2v NADBeta-D-hydroxybutyrate dehydrogenase / 0.692
2v7g NADUrocanate hydratase 4.2.1.49 0.691
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.690
3rj9 NADAlcohol dehydrogenase 1.1.1.1 0.690
3w8e NAD3-hydroxybutyrate dehydrogenase / 0.690
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.688
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.687
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.686
4iqg NAPShort-chain dehydrogenase/reductase SDR / 0.686
4lk3 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.686
4qec NAPElxO / 0.685
1g6k NADGlucose 1-dehydrogenase 1.1.1.47 0.683
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.682
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.682
1pr9 NAPL-xylulose reductase 1.1.1.10 0.681
1rp0 AHZThiamine thiazole synthase, chloroplastic / 0.681
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.681
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.681
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.680
3wmx NADNAD dependent epimerase/dehydratase / 0.680
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.679
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.678
4c4o NADSADH / 0.678
4yag NAIC alpha-dehydrogenase / 0.678
1x7h NDPPutative ketoacyl reductase 1.3.1 0.677
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.677
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.677
3gy0 NAPNAD(P)-dependent oxidoreductase / 0.676
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.675
1ae1 NAPTropinone reductase 1 / 0.674
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.674
1w73 NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.674
2c4c FAD[F-actin]-methionine sulfoxide oxidase MICAL1 1.14.13 0.674
4fj1 NAP17beta-hydroxysteroid dehydrogenase / 0.674
2wdz NADGalactitol dehydrogenase / 0.673
1rpn NDPGDP-mannose 4,6-dehydratase / 0.672
1sby NADAlcohol dehydrogenase 1.1.1.1 0.672
1x7g NAPPutative ketoacyl reductase 1.3.1 0.672
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.672
5lc1 NADL-threonine 3-dehydrogenase / 0.672
2dte NAIGlucose 1-dehydrogenase related protein / 0.671
2ztu NADD(-)-3-hydroxybutyrate dehydrogenase / 0.671
4e5y NDPGDP-L-fucose synthase 1.1.1.271 0.671
4fn4 NADShort chain dehydrogenase / 0.671
4plp NADHomospermidine synthase 2.5.1.44 0.671
1ek5 NADUDP-glucose 4-epimerase / 0.669
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.669
3a1n NADNDP-sugar epimerase / 0.669
3qrw NDPPutative ketoacyl reductase 1.3.1 0.669
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.669
4dbz NDPPutative ketoacyl reductase 1.3.1 0.669
3qwf NAP17beta-hydroxysteroid dehydrogenase / 0.668
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.667
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.667
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.666
2ji6 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.666
4b4o NDPEpimerase family protein SDR39U1 / 0.666
4rf2 NAPNADPH dependent R-specific alcohol dehydrogenase / 0.666
1oaa NAPSepiapterin reductase 1.1.1.153 0.665
3bhi NAPCarbonyl reductase [NADPH] 1 1.1.1.184 0.665
3s55 NADPutative short-chain dehydrogenase/reductase / 0.665
4wec NADShort chain dehydrogenase / 0.665
1t2a NDPGDP-mannose 4,6 dehydratase 4.2.1.47 0.664
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.664
2ztl NADD(-)-3-hydroxybutyrate dehydrogenase / 0.664
4tvb NADHomospermidine synthase 2.5.1.44 0.664
3uce NDPDehydrogenase / 0.663
4b8w NAPGDP-L-fucose synthase 1.1.1.271 0.663
4j7x NAPSepiapterin reductase 1.1.1.153 0.663
2hrb NAPCarbonyl reductase [NADPH] 3 1.1.1.184 0.662
3k30 ADPHistamine dehydrogenase / 0.662
3l77 NJPShort-chain alcohol dehydrogenase / 0.662
1p1c SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.661
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.661
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.660
1qyv NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.660
2ieb ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.660
3ai2 NDPNADPH-sorbose reductase / 0.660
3g49 NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.659
3o26 NDPSalutaridine reductase / 0.659
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.659
5l3d FADLysine-specific histone demethylase 1A 1 0.659
2zat NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.658
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.658
4hwk NAPSepiapterin reductase 1.1.1.153 0.658
1p44 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.657
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.657
3vdq NAD3-hydroxybutyrate dehydrogenase / 0.657
4fj2 NAP17beta-hydroxysteroid dehydrogenase / 0.657
1mg5 NAIAlcohol dehydrogenase 1.1.1.1 0.656
2p5u NADUDP-glucose 4-epimerase / 0.656
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.655
1wy7 SAHUncharacterized protein / 0.654
3ggp NADPrephenate dehydrogenase / 0.654
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.654
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.652
4yai NAIC alpha-dehydrogenase / 0.652
2z1m NDPGDP-mannose 4,6-dehydratase / 0.651
4a99 FADTetX family tetracycline inactivation enzyme / 0.651
4fj0 NAP17beta-hydroxysteroid dehydrogenase / 0.651
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.650
2pk3 A2RGDP-6-deoxy-D-mannose reductase / 0.650
4cql NADEstradiol 17-beta-dehydrogenase 8 1.1.1.62 0.650