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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
5jyd NAD Short chain dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
5jyd NADShort chain dehydrogenase / 1.272
3r3s NADPutative oxidoreductase / 1.120
3ijr NADOxidoreductase, short chain dehydrogenase/reductase family / 1.028
3gy0 NAPNAD(P)-dependent oxidoreductase / 0.891
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.887
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.877
4fc7 NAPPeroxisomal 2,4-dienoyl-CoA reductase 1.3.1.34 0.856
4clo NAPPteridine reductase / 0.851
4kwh NAPReductase homolog / 0.843
1w8d NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.834
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.824
4yag NAIC alpha-dehydrogenase / 0.821
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.819
3bmo NAPPteridine reductase / 0.817
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.810
3p19 NDPPutative blue fluorescent protein / 0.810
1oaa NAPSepiapterin reductase 1.1.1.153 0.803
1w73 NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.803
2wyv NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.803
4bmv NAPShort-chain dehydrogenase / 0.803
3h4v NAPPteridine reductase 1 1.5.1.33 0.800
1pr9 NAPL-xylulose reductase 1.1.1.10 0.798
1cyd NDPCarbonyl reductase [NADPH] 2 1.1.1.184 0.797
4m87 NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.796
2jah NDPClavaldehyde dehydrogenase / 0.789
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.785
4zju NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.785
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.780
4pvd NDPNADPH-dependent methylglyoxal reductase GRE2 / 0.780
3bhi NAPCarbonyl reductase [NADPH] 1 1.1.1.184 0.779
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.778
3ak4 NADNADH-dependent quinuclidinone reductase / 0.778
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.777
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.775
1vl8 NAPOxidoreductase, short chain dehydrogenase/reductase family / 0.774
5koi NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.774
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.773
4yai NAIC alpha-dehydrogenase / 0.773
4b79 NADProbable short-chain dehydrogenase / 0.768
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.768
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.766
4j7u NAPSepiapterin reductase 1.1.1.153 0.766
3o26 NDPSalutaridine reductase / 0.764
2bfo NDPPteridine reductase 1 1.5.1.33 0.762
2q2v NADBeta-D-hydroxybutyrate dehydrogenase / 0.762
5bt9 NAP3-oxoacyl-(Acyl-carrier-protein) reductase / 0.762
2zat NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.761
3vdq NAD3-hydroxybutyrate dehydrogenase / 0.761
2ggs NDPdTDP-4-dehydrorhamnose reductase / 0.760
3a28 NADL-2,3-butanediol dehydrogenase 1.1.1.76 0.760
4o1m NADEnoyl-acyl carrier reductase / 0.759
4z3d NDPCarbonyl reductase [NADPH] 1 1.1.1.184 0.759
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.758
3f1k NAPUncharacterized oxidoreductase YciK 1 0.758
3rj9 NADAlcohol dehydrogenase 1.1.1.1 0.758
4u7w NDPMxaA / 0.757
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.756
1h5q NAPNADP-dependent mannitol dehydrogenase 1.1.1.138 0.755
1bdb NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase / 0.754
4rf2 NAPNADPH dependent R-specific alcohol dehydrogenase / 0.754
1sny NAPLD36273p / 0.753
3geg NADShort-chain dehydrogenase/reductase SDR / 0.752
3tox NAPPutative oxidoreductase / 0.751
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.751
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.751
2o23 NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.750
2ztl NADD(-)-3-hydroxybutyrate dehydrogenase / 0.750
3o4r NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.749
2c29 NAPDihydroflavonol 4-reductase / 0.748
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.747
1rwb NADGlucose 1-dehydrogenase 1.1.1.47 0.745
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.745
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.743
4hbg NDP3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.743
4oxy NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.743
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.740
3d3w NAPL-xylulose reductase 1.1.1.10 0.739
3w8e NAD3-hydroxybutyrate dehydrogenase / 0.739
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.738
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.737
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.737
5cpb NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.736
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.735
1w4z NAPPutative ketoacyl reductase 1.3.1 0.734
1e6w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.732
1g6k NADGlucose 1-dehydrogenase 1.1.1.47 0.731
3tsc NADUncharacterized protein / 0.730
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.729
3ai2 NDPNADPH-sorbose reductase / 0.729
3o03 NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) / 0.729
3aut NAIGlucose 1-dehydrogenase 4 1.1.1.47 0.727
3sx2 NADUncharacterized protein / 0.726
5idw NAPShort-chain dehydrogenase/reductase SDR / 0.726
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.724
1vrw NAIEnoyl-ACP reductase / 0.724
2aqh NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.723
2p5y NADUDP-glucose 4-epimerase / 0.723
2wdz NADGalactitol dehydrogenase / 0.723
2aq8 NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.722
3oey NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.722
3icp NADNAD-dependent epimerase/dehydratase / 0.721
4dti NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.720
2aqi NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.719
3g49 NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.719
4fj1 NAP17beta-hydroxysteroid dehydrogenase / 0.719
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.718
2nv6 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.718
3l77 NJPShort-chain alcohol dehydrogenase / 0.718
4hxy NDPPlm1 / 0.718
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.717
2yy7 NADL-threonine dehydrogenase / 0.717
3wds NADNADH-dependent quinuclidinone reductase / 0.717
3s55 NADPutative short-chain dehydrogenase/reductase / 0.716
3sju NDPKeto reductase / 0.716
3of2 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.715
3uce NDPDehydrogenase / 0.715
1edo NAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic 1.1.1.100 0.714
2ntj P1HEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.714
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.714
3qrw NDPPutative ketoacyl reductase 1.3.1 0.714
4dre NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.713
2b35 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.712
4bii NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.712
1b16 NAQAlcohol dehydrogenase 1.1.1.1 0.711
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.711
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.711
1e3s NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.710
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.710
2h9i EADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.710
2ztu NADD(-)-3-hydroxybutyrate dehydrogenase / 0.710
3aw9 NADNAD-dependent epimerase/dehydratase / 0.710
3oew NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.710
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.709
3uic NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.709
1xkq NDPUncharacterized protein / 0.708
2idz ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.708
4j7x NAPSepiapterin reductase 1.1.1.153 0.708
2ekp NAD2-deoxy-D-gluconate 3-dehydrogenase / 0.707
2y99 NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase 1.3.1.56 0.707
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.707
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.707
4fn4 NADShort chain dehydrogenase / 0.707
4wec NADShort chain dehydrogenase / 0.707
4dbz NDPPutative ketoacyl reductase 1.3.1 0.705
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.704
2aqk NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.704
4bms NAPAlclohol dehydrogenase/short-chain dehydrogenase / 0.704
2b4q NAPRhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.703
3uxy NADShort-chain dehydrogenase/reductase SDR / 0.703
4b8w NAPGDP-L-fucose synthase 1.1.1.271 0.703
2yw9 NAPEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.702
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.702
1e3w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.701
1ae1 NAPTropinone reductase 1 / 0.700
1zem NADXylitol dehydrogenase / 0.699
2b37 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.699
4i5e NAPAlclohol dehydrogenase/short-chain dehydrogenase / 0.699
4id9 NADPutative UDP-glucose 4-epimerase / 0.699
4trn NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.699
3ko8 NADNAD-dependent epimerase/dehydratase / 0.698
2ieb ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.697
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.696
2nq8 ZIDEnoyl-ACP reductase / 0.696
4dmm NAP3-oxoacyl-[acyl-carrier-protein] reductase / 0.696
1eny NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.695
4ej0 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.695
1bxk NADdTDP-glucose 4,6-dehydratase 2 / 0.694
1b2l NDCAlcohol dehydrogenase 1.1.1.1 0.693
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.693
1x7g NAPPutative ketoacyl reductase 1.3.1 0.692
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.692
1ipe NDPTropinone reductase 2 1.1.1.236 0.691
2dte NAIGlucose 1-dehydrogenase related protein / 0.691
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.691
1bws NDPGDP-L-fucose synthase / 0.690
2yut NAPPutative short-chain oxidoreductase / 0.690
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.690
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.689
4eso NAPPutative oxidoreductase / 0.688
1qyv NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.687
3ai3 NDPNADPH-sorbose reductase / 0.687
1fk8 NAD3-alpha-hydroxysteroid dehydrogenase/carbonyl reductase 1.1.1.50 0.686
4fj0 NAP17beta-hydroxysteroid dehydrogenase / 0.686
5jla NADPutative short-chain dehydrogenase/reductase / 0.686
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.684
1g1a NADdTDP-glucose 4,6-dehydratase / 0.683
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.683
2pk3 A2RGDP-6-deoxy-D-mannose reductase / 0.683
3wmx NADNAD dependent epimerase/dehydratase / 0.683
1g0n NDPTetrahydroxynaphthalene reductase 1.1.1.252 0.682
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.681
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.681
4bqp NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.681
1rpn NDPGDP-mannose 4,6-dehydratase / 0.680
2ntv P1HEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.680
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.680
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.678
2ydx NAPMethionine adenosyltransferase 2 subunit beta / 0.678
4lk3 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.678
1wnt NAPL-xylulose reductase 1.1.1.10 0.677
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.676
1x7h NDPPutative ketoacyl reductase 1.3.1 0.676
4bgi NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.675
3tn7 NJPShort-chain alcohol dehydrogenase / 0.673
1fdu NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.672
3a1n NADNDP-sugar epimerase / 0.671
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.671
4qed NAPElxO / 0.671
2ie0 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.670
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.670
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.670
1iy8 NADLevodione reductase / 0.669
3mje NDPAmphB / 0.669
3orf NADDihydropteridine reductase 1.5.1.34 0.669
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.669
3wfj NAD2-dehydropantoate 2-reductase / 0.668
2rbe NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.667
2vna NAPProstaglandin reductase 2 1.3.1.48 0.667
3zu2 NAIEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.667
4idg NADPutative UDP-glucose 4-epimerase / 0.667
2bd0 NAPSepiapterin reductase / 0.666
5jy1 NADPutative short-chain dehydrogenase/reductase / 0.666
1sby NADAlcohol dehydrogenase 1.1.1.1 0.665
4hwk NAPSepiapterin reductase 1.1.1.153 0.665
1t2a NDPGDP-mannose 4,6 dehydratase 4.2.1.47 0.664
4cql NADEstradiol 17-beta-dehydrogenase 8 1.1.1.62 0.663
4dqu NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.663
4tqg NDPPutative dTDP-d-glucose 4 6-dehydratase / 0.662
5d2e NAPMlnE / 0.661
2z95 NDPGDP-mannose 4,6-dehydratase / 0.660
1b14 NADAlcohol dehydrogenase 1.1.1.1 0.659
2p5u NADUDP-glucose 4-epimerase / 0.659
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.658
2y05 NAPProstaglandin reductase 1 / 0.656
1b15 NAEAlcohol dehydrogenase 1.1.1.1 0.655
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.655
1p44 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.654
4bkq NAIEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.654
4qec NAPElxO / 0.654
1eq2 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.653
2wsb NADGalactitol dehydrogenase / 0.653
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.652
2z1m NDPGDP-mannose 4,6-dehydratase / 0.652
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.652
2jcs TTPDeoxynucleoside kinase / 0.651
1v35 NAIEnoyl-ACP reductase / 0.650
4n5n NAPAcetoacetyl-CoA reductase 1.1.1.36 0.650