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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
1ek5 NAD UDP-glucose 4-epimerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1ek5 NADUDP-glucose 4-epimerase / 1.303
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.958
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.914
3sx2 NADUncharacterized protein / 0.830
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.794
1bdb NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase / 0.790
2p5y NADUDP-glucose 4-epimerase / 0.789
1i3l NADUDP-glucose 4-epimerase / 0.780
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.778
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.764
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.760
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.757
2jah NDPClavaldehyde dehydrogenase / 0.756
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.756
2c29 NAPDihydroflavonol 4-reductase / 0.749
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.747
4fn4 NADShort chain dehydrogenase / 0.747
2iw5 FADLysine-specific histone demethylase 1A 1 0.745
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.740
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.739
3l77 NJPShort-chain alcohol dehydrogenase / 0.737
3tsc NADUncharacterized protein / 0.735
2dw4 FADLysine-specific histone demethylase 1A 1 0.734
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.734
4wec NADShort chain dehydrogenase / 0.732
4bmv NAPShort-chain dehydrogenase / 0.731
1zem NADXylitol dehydrogenase / 0.727
3kpf FADPolyamine oxidase 1.5.3.14 0.725
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.723
1orr NADCDP-paratose 2-epimerase / 0.722
2p5u NADUDP-glucose 4-epimerase / 0.722
3vdq NAD3-hydroxybutyrate dehydrogenase / 0.719
1fdu NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.718
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.718
2y99 NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase 1.3.1.56 0.718
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.717
2uxx FAJLysine-specific histone demethylase 1A 1 0.717
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.717
3s55 NADPutative short-chain dehydrogenase/reductase / 0.714
2c20 NADUDP-glucose 4-epimerase / 0.713
3a4v NADNDP-sugar epimerase / 0.709
4xbf FADLysine-specific histone demethylase 1A 1 0.708
5l3d FADLysine-specific histone demethylase 1A 1 0.708
3tn7 NJPShort-chain alcohol dehydrogenase / 0.706
1cyd NDPCarbonyl reductase [NADPH] 2 1.1.1.184 0.705
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.705
4gdp FADPolyamine oxidase FMS1 / 0.705
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.704
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.704
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.704
2c31 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.703
2vvl FADMonoamine oxidase N 1.4.3.4 0.703
2ztl NADD(-)-3-hydroxybutyrate dehydrogenase / 0.703
4yai NAIC alpha-dehydrogenase / 0.702
2yy7 NADL-threonine dehydrogenase / 0.701
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.701
4yag NAIC alpha-dehydrogenase / 0.701
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.700
2yg7 FADPutrescine oxidase / 0.699
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.699
1h81 FADPolyamine oxidase 1.5.3.14 0.696
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.695
2ydx NAPMethionine adenosyltransferase 2 subunit beta / 0.695
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.695
4fwe FADLysine-specific histone demethylase 1B 1 0.694
1e3w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.693
3geg NADShort-chain dehydrogenase/reductase SDR / 0.693
3p19 NDPPutative blue fluorescent protein / 0.693
3d3w NAPL-xylulose reductase 1.1.1.10 0.692
3rfx NADUronate dehydrogenase / 0.692
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.691
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.691
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.689
3k7t FAD6-hydroxy-L-nicotine oxidase / 0.689
4iqg NAPShort-chain dehydrogenase/reductase SDR / 0.689
4yuv S4MSpermidine synthase, putative / 0.689
1pr9 NAPL-xylulose reductase 1.1.1.10 0.688
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.688
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.688
2hko FADLysine-specific histone demethylase 1A 1 0.688
3rku NAPNADP-dependent 3-hydroxy acid dehydrogenase / 0.688
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.687
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.685
5jla NADPutative short-chain dehydrogenase/reductase / 0.685
2jib ADPOxalyl-CoA decarboxylase 4.1.1.8 0.684
2y48 FADLysine-specific histone demethylase 1A 1 0.684
3wds NADNADH-dependent quinuclidinone reductase / 0.684
1h83 FADPolyamine oxidase 1.5.3.14 0.683
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.683
1iy8 NADLevodione reductase / 0.680
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.680
4b79 NADProbable short-chain dehydrogenase / 0.679
3g49 NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.678
1vl8 NAPOxidoreductase, short chain dehydrogenase/reductase family / 0.677
2q2v NADBeta-D-hydroxybutyrate dehydrogenase / 0.677
3qrw NDPPutative ketoacyl reductase 1.3.1 0.677
5lc1 NADL-threonine 3-dehydrogenase / 0.677
2bgl NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.676
3ai3 NDPNADPH-sorbose reductase / 0.676
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.676
5koi NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.676
3sju NDPKeto reductase / 0.675
1ahh NAD7-alpha-hydroxysteroid dehydrogenase 1.1.1.159 0.674
3bhi NAPCarbonyl reductase [NADPH] 1 1.1.1.184 0.674
4rf2 NAPNADPH dependent R-specific alcohol dehydrogenase / 0.674
4cql NADEstradiol 17-beta-dehydrogenase 8 1.1.1.62 0.673
4yr9 NADL-threonine 3-dehydrogenase, mitochondrial 1.1.1.103 0.673
4ech FADPolyamine oxidase FMS1 / 0.672
4yv0 S4MSpermidine synthase, putative / 0.672
2rbe NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.671
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.671
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.671
4yac NAIC alpha-dehydrogenase / 0.671
2ji9 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.670
4gut FADLysine-specific histone demethylase 1B 1 0.670
4iv0 SAMPhosphoethanolamine N-methyltransferase, putative / 0.670
4egb NADdTDP-glucose 4,6-dehydratase / 0.669
2r0c FADPutative FAD-monooxygenase / 0.668
3a9w NADNDP-sugar epimerase / 0.668
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.667
2zb3 NDPProstaglandin reductase 2 1.3.1.48 0.666
3ko8 NADNAD-dependent epimerase/dehydratase / 0.666
4gus FADLysine-specific histone demethylase 1B 1 0.666
1xkq NDPUncharacterized protein / 0.665
2vna NAPProstaglandin reductase 2 1.3.1.48 0.665
1zmc NADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.664
2ji7 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.664
3k7m FAD6-hydroxy-L-nicotine oxidase / 0.664
3o26 NDPSalutaridine reductase / 0.664
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.664
4bii NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.664
4iv8 SAMPhosphoethanolamine N-methyltransferase,putative / 0.664
1eny NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.663
1h6c NDPGlucose--fructose oxidoreductase 1.1.99.28 0.663
1oaa NAPSepiapterin reductase 1.1.1.153 0.663
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.663
2ji6 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.663
4guu FA9Lysine-specific histone demethylase 1B 1 0.663
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.662
4i5e NAPAlclohol dehydrogenase/short-chain dehydrogenase / 0.662
2wsb NADGalactitol dehydrogenase / 0.661
2y05 NAPProstaglandin reductase 1 / 0.661
4hxy NDPPlm1 / 0.661
4krh SAMPhosphoethanolamine N-methyltransferase 2 / 0.661
1bxk NADdTDP-glucose 4,6-dehydratase 2 / 0.660
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.660
3a28 NADL-2,3-butanediol dehydrogenase 1.1.1.76 0.660
3cn8 FADPolyamine oxidase FMS1 / 0.660
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.660
1edo NAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic 1.1.1.100 0.659
4bqp NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.659
4ek9 EP4Histone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.659
2yg3 FADPutrescine oxidase / 0.658
3wmx NADNAD dependent epimerase/dehydratase / 0.658
4dbz NDPPutative ketoacyl reductase 1.3.1 0.658
1d2h SAHGlycine N-methyltransferase 2.1.1.20 0.657
2ewm NAD(S)-1-Phenylethanol dehydrogenase 1.1.1.311 0.657
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.657
4kwh NAPReductase homolog / 0.657
1yy5 FADPolyamine oxidase FMS1 / 0.656
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.656
3of2 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.655
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.655
4imp NDPPolyketide synthase extender modules 3-4 / 0.655
1f8s FADL-amino-acid oxidase 1.4.3.2 0.654
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.654
3ajr NADNDP-sugar epimerase / 0.654
3icp NADNAD-dependent epimerase/dehydratase / 0.654
3oey NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.654
4m87 NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.653
2ztu NADD(-)-3-hydroxybutyrate dehydrogenase / 0.652
2q28 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.651
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.651
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.651
4fw8 NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.651
4rls NAIL-lactate dehydrogenase A chain 1.1.1.27 0.651
2idz ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.650
4u7w NDPMxaA / 0.650