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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
1e3w NAD 3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
1e3w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 1.159
1e6w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 1.151
2o23 NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 1.105
1e3s NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 1.014
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.992
1u7t TDT3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.988
3sx2 NADUncharacterized protein / 0.980
1u7t NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.979
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.965
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.943
3s55 NADPutative short-chain dehydrogenase/reductase / 0.942
4yai NAIC alpha-dehydrogenase / 0.937
5jla NADPutative short-chain dehydrogenase/reductase / 0.927
1iy8 NADLevodione reductase / 0.918
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.915
4z3d NDPCarbonyl reductase [NADPH] 1 1.1.1.184 0.914
3tsc NADUncharacterized protein / 0.911
1edo NAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic 1.1.1.100 0.906
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.902
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.897
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.888
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.878
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.873
1x7h NDPPutative ketoacyl reductase 1.3.1 0.872
2jah NDPClavaldehyde dehydrogenase / 0.872
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.872
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.870
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.869
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.868
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.862
3qrw NDPPutative ketoacyl reductase 1.3.1 0.861
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.860
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.856
3a28 NADL-2,3-butanediol dehydrogenase 1.1.1.76 0.855
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.855
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.853
3l77 NJPShort-chain alcohol dehydrogenase / 0.850
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.850
4dbz NDPPutative ketoacyl reductase 1.3.1 0.840
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.836
3wds NADNADH-dependent quinuclidinone reductase / 0.833
3tn7 NJPShort-chain alcohol dehydrogenase / 0.832
4kwh NAPReductase homolog / 0.832
3rj9 NADAlcohol dehydrogenase 1.1.1.1 0.829
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.829
3sju NDPKeto reductase / 0.828
3bhi NAPCarbonyl reductase [NADPH] 1 1.1.1.184 0.827
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.825
2wsb NADGalactitol dehydrogenase / 0.823
1g0n NDPTetrahydroxynaphthalene reductase 1.1.1.252 0.821
1vl8 NAPOxidoreductase, short chain dehydrogenase/reductase family / 0.818
2q2v NADBeta-D-hydroxybutyrate dehydrogenase / 0.818
4fj1 NAP17beta-hydroxysteroid dehydrogenase / 0.814
3mje NDPAmphB / 0.810
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.809
4yag NAIC alpha-dehydrogenase / 0.809
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.808
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.806
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.806
1x7g NAPPutative ketoacyl reductase 1.3.1 0.805
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.804
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.804
1w4z NAPPutative ketoacyl reductase 1.3.1 0.803
3ijr NADOxidoreductase, short chain dehydrogenase/reductase family / 0.803
3p19 NDPPutative blue fluorescent protein / 0.803
4wec NADShort chain dehydrogenase / 0.802
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.801
4b79 NADProbable short-chain dehydrogenase / 0.798
3icp NADNAD-dependent epimerase/dehydratase / 0.797
2bd0 NAPSepiapterin reductase / 0.796
3o26 NDPSalutaridine reductase / 0.796
1pr9 NAPL-xylulose reductase 1.1.1.10 0.795
4qec NAPElxO / 0.795
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.794
1bdb NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase / 0.792
1h5q NAPNADP-dependent mannitol dehydrogenase 1.1.1.138 0.792
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.792
2ekp NAD2-deoxy-D-gluconate 3-dehydrogenase / 0.790
3rku NAPNADP-dependent 3-hydroxy acid dehydrogenase / 0.790
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.787
4qed NAPElxO / 0.786
1mg5 NAIAlcohol dehydrogenase 1.1.1.1 0.785
1cyd NDPCarbonyl reductase [NADPH] 2 1.1.1.184 0.784
1orr NADCDP-paratose 2-epimerase / 0.783
3d3w NAPL-xylulose reductase 1.1.1.10 0.783
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.783
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.782
4bmv NAPShort-chain dehydrogenase / 0.780
4fj0 NAP17beta-hydroxysteroid dehydrogenase / 0.780
5d2e NAPMlnE / 0.780
3ko8 NADNAD-dependent epimerase/dehydratase / 0.779
1sny NAPLD36273p / 0.778
2c29 NAPDihydroflavonol 4-reductase / 0.777
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.775
1ipe NDPTropinone reductase 2 1.1.1.236 0.774
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.774
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.774
1oaa NAPSepiapterin reductase 1.1.1.153 0.773
5b1y NDP3-oxoacyl-[acyl-carrier-protein] reductase / 0.773
1b16 NAQAlcohol dehydrogenase 1.1.1.1 0.771
3ak4 NADNADH-dependent quinuclidinone reductase / 0.770
4fj2 NAP17beta-hydroxysteroid dehydrogenase / 0.770
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.769
2p5y NADUDP-glucose 4-epimerase / 0.769
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.768
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.767
1g6k NADGlucose 1-dehydrogenase 1.1.1.47 0.766
3tox NAPPutative oxidoreductase / 0.766
4j7u NAPSepiapterin reductase 1.1.1.153 0.766
1rwb NADGlucose 1-dehydrogenase 1.1.1.47 0.765
3wmx NADNAD dependent epimerase/dehydratase / 0.765
4dmm NAP3-oxoacyl-[acyl-carrier-protein] reductase / 0.764
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.762
4pvd NDPNADPH-dependent methylglyoxal reductase GRE2 / 0.762
1i3l NADUDP-glucose 4-epimerase / 0.760
3qwf NAP17beta-hydroxysteroid dehydrogenase / 0.760
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.758
3geg NADShort-chain dehydrogenase/reductase SDR / 0.758
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.757
3o4r NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.756
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.755
5idw NAPShort-chain dehydrogenase/reductase SDR / 0.754
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.753
1fk8 NAD3-alpha-hydroxysteroid dehydrogenase/carbonyl reductase 1.1.1.50 0.752
1zem NADXylitol dehydrogenase / 0.752
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.749
2ag5 NAD3-hydroxybutyrate dehydrogenase type 2 / 0.749
1b15 NAEAlcohol dehydrogenase 1.1.1.1 0.747
2q2q NADBeta-D-hydroxybutyrate dehydrogenase / 0.747
4u7w NDPMxaA / 0.746
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.743
4hxy NDPPlm1 / 0.743
2hsd NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.741
4yac NAIC alpha-dehydrogenase / 0.741
3aw9 NADNAD-dependent epimerase/dehydratase / 0.739
3aut NAIGlucose 1-dehydrogenase 4 1.1.1.47 0.738
4hwk NAPSepiapterin reductase 1.1.1.153 0.738
2wdz NADGalactitol dehydrogenase / 0.737
4i5e NAPAlclohol dehydrogenase/short-chain dehydrogenase / 0.736
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.734
3o03 NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) / 0.733
2b4q NAPRhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.732
4zju NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.732
1sby NADAlcohol dehydrogenase 1.1.1.1 0.731
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.730
3uxy NADShort-chain dehydrogenase/reductase SDR / 0.730
2dte NAIGlucose 1-dehydrogenase related protein / 0.729
2yut NAPPutative short-chain oxidoreductase / 0.728
3ai2 NDPNADPH-sorbose reductase / 0.728
2ztl NADD(-)-3-hydroxybutyrate dehydrogenase / 0.727
4j7x NAPSepiapterin reductase 1.1.1.153 0.726
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.726
1ae1 NAPTropinone reductase 1 / 0.725
5cpb NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.725
2wyv NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.724
4cql NADEstradiol 17-beta-dehydrogenase 8 1.1.1.62 0.724
3uce NDPDehydrogenase / 0.723
2ieb ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.721
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.720
1b2l NDCAlcohol dehydrogenase 1.1.1.1 0.719
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.719
4ej0 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.719
4nbw NADShort-chain dehydrogenase/reductase SDR / 0.719
2hrb NAPCarbonyl reductase [NADPH] 3 1.1.1.184 0.718
2p5u NADUDP-glucose 4-epimerase / 0.717
3gy0 NAPNAD(P)-dependent oxidoreductase / 0.717
2yy7 NADL-threonine dehydrogenase / 0.715
1b14 NADAlcohol dehydrogenase 1.1.1.1 0.714
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.714
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.714
4rf2 NAPNADPH dependent R-specific alcohol dehydrogenase / 0.713
2idz ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.712
3of2 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.711
2ggs NDPdTDP-4-dehydrorhamnose reductase / 0.710
2ztu NADD(-)-3-hydroxybutyrate dehydrogenase / 0.710
3ai3 NDPNADPH-sorbose reductase / 0.710
4fn4 NADShort chain dehydrogenase / 0.710
3oew NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.709
3oey NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.709
3w8e NAD3-hydroxybutyrate dehydrogenase / 0.709
4lk3 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.709
4trn NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.707
4bms NAPAlclohol dehydrogenase/short-chain dehydrogenase / 0.706
4m87 NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.706
1xkq NDPUncharacterized protein / 0.704
2b35 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.701
4y9d NAIC alpha-dehydrogenase / 0.701
5jyd NADShort chain dehydrogenase / 0.701
2c20 NADUDP-glucose 4-epimerase / 0.699
2y99 NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase 1.3.1.56 0.699
3a9w NADNDP-sugar epimerase / 0.699
4b4o NDPEpimerase family protein SDR39U1 / 0.698
2ntj P1HEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.697
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.695
3rue NADUDP-N-acetylglucosamine 4-epimerase / 0.694
5koi NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.694
1ek5 NADUDP-glucose 4-epimerase / 0.693
4iqg NAPShort-chain dehydrogenase/reductase SDR / 0.692
1eq2 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.690
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.689
1w8d NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.688
3orf NADDihydropteridine reductase 1.5.1.34 0.688
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.687
2x6t NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.687
2bfo NDPPteridine reductase 1 1.5.1.33 0.686
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.686
2rbe NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.685
4idg NADPutative UDP-glucose 4-epimerase / 0.685
1fdu NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.684
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.684
2z1m NDPGDP-mannose 4,6-dehydratase / 0.684
2b37 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.683
2ie0 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.681
3lqf NADGalactitol dehydrogenase / 0.681
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.680
4o1m NADEnoyl-acyl carrier reductase / 0.679
1enz NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.678
3vdq NAD3-hydroxybutyrate dehydrogenase / 0.678
4bii NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.678
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.678
2aq8 NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.677
2aqi NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.677
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.677
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.677
3a4v NADNDP-sugar epimerase / 0.677
2h9i EADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.675
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.675
4oxy NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.675
4eso NAPPutative oxidoreductase / 0.674
1eny NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.673
4fc7 NAPPeroxisomal 2,4-dienoyl-CoA reductase 1.3.1.34 0.673
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.672
2nv6 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.671
4dre NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.671
1wvg APRCDP-glucose 4,6-dehydratase 4.2.1.45 0.670
3f1k NAPUncharacterized oxidoreductase YciK 1 0.670
3r3s NADPutative oxidoreductase / 0.670
4hbg NDP3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.670
5jy1 NADPutative short-chain dehydrogenase/reductase / 0.670
2d8a NADL-threonine 3-dehydrogenase / 0.669
1bw9 NADPhenylalanine dehydrogenase / 0.668
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.668
2yw9 NAPEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.668
1bxk NADdTDP-glucose 4,6-dehydratase 2 / 0.667
1qyv NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.667
1rpn NDPGDP-mannose 4,6-dehydratase / 0.667
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.667
3a1n NADNDP-sugar epimerase / 0.667
2aqh NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.664
3ajr NADNDP-sugar epimerase / 0.664
3wsw NADL-lactate dehydrogenase / 0.663
3wv8 ATPHmd co-occurring protein HcgE / 0.662
4bqp NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.662
3abi NADUncharacterized protein / 0.661
4n5n NAPAcetoacetyl-CoA reductase 1.1.1.36 0.661
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.660
2ewm NAD(S)-1-Phenylethanol dehydrogenase 1.1.1.311 0.660
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.660
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.659
2z95 NDPGDP-mannose 4,6-dehydratase / 0.659
3h4v NAPPteridine reductase 1 1.5.1.33 0.659
3jyo NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.658
4j4b NAIUncharacterized protein / 0.657
2o4c NADErythronate-4-phosphate dehydrogenase / 0.655
3wv7 ADPHmd co-occurring protein HcgE / 0.655
1p44 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.654
2dfv NADL-threonine 3-dehydrogenase / 0.654
2hmv ADPKtr system potassium uptake protein A / 0.654
3gvi ADPMalate dehydrogenase / 0.654
1k0l FADp-hydroxybenzoate hydroxylase / 0.653
4eue NAITrans-2-enoyl-CoA reductase [NADH] / 0.653
1o6z NADMalate dehydrogenase / 0.652
4dti NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.652
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.651
1uay ADNOxidoreductase / 0.651
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.651
1vrw NAIEnoyl-ACP reductase / 0.650
3cin NADMyo-inositol-1-phosphate synthase-related protein / 0.650
4yv2 S4MSpermidine synthase, putative / 0.650