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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
2c59 NAD GDP-mannose 3,5-epimerase 5.1.3.18

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 1.274
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 1.086
2p5y NADUDP-glucose 4-epimerase / 0.975
3icp NADNAD-dependent epimerase/dehydratase / 0.965
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.949
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.948
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.939
3aw9 NADNAD-dependent epimerase/dehydratase / 0.935
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.926
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.920
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.909
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.898
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.882
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.882
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.881
1i3l NADUDP-glucose 4-epimerase / 0.880
3ko8 NADNAD-dependent epimerase/dehydratase / 0.874
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.874
4u7w NDPMxaA / 0.871
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.868
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.861
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.860
3s55 NADPutative short-chain dehydrogenase/reductase / 0.859
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.857
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.846
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.845
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.845
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.842
3mje NDPAmphB / 0.838
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.829
4hxy NDPPlm1 / 0.827
2c29 NAPDihydroflavonol 4-reductase / 0.824
3tsc NADUncharacterized protein / 0.819
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.817
3uce NDPDehydrogenase / 0.814
4ej0 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.814
2ggs NDPdTDP-4-dehydrorhamnose reductase / 0.813
3bmo NAPPteridine reductase / 0.812
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.809
4lk3 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.809
1e6w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.808
4idg NADPutative UDP-glucose 4-epimerase / 0.806
4id9 NADPutative UDP-glucose 4-epimerase / 0.803
2p5u NADUDP-glucose 4-epimerase / 0.802
2pk3 A2RGDP-6-deoxy-D-mannose reductase / 0.798
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.795
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.795
1e3w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.794
3aut NAIGlucose 1-dehydrogenase 4 1.1.1.47 0.794
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.793
2hrb NAPCarbonyl reductase [NADPH] 3 1.1.1.184 0.793
3g49 NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.793
2wdz NADGalactitol dehydrogenase / 0.791
1g1a NADdTDP-glucose 4,6-dehydratase / 0.790
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.789
1e3s NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.788
1sny NAPLD36273p / 0.788
2ekp NAD2-deoxy-D-gluconate 3-dehydrogenase / 0.786
5jyd NADShort chain dehydrogenase / 0.785
2yut NAPPutative short-chain oxidoreductase / 0.784
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.784
1zem NADXylitol dehydrogenase / 0.781
2o23 NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.781
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.779
3wds NADNADH-dependent quinuclidinone reductase / 0.778
1orr NADCDP-paratose 2-epimerase / 0.777
1pr9 NAPL-xylulose reductase 1.1.1.10 0.777
2dte NAIGlucose 1-dehydrogenase related protein / 0.777
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.776
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.776
3d3w NAPL-xylulose reductase 1.1.1.10 0.776
1g6k NADGlucose 1-dehydrogenase 1.1.1.47 0.775
5d2e NAPMlnE / 0.775
1rwb NADGlucose 1-dehydrogenase 1.1.1.47 0.772
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.772
1w8d NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.771
3ak4 NADNADH-dependent quinuclidinone reductase / 0.770
1cyd NDPCarbonyl reductase [NADPH] 2 1.1.1.184 0.769
3rku NAPNADP-dependent 3-hydroxy acid dehydrogenase / 0.766
1h5q NAPNADP-dependent mannitol dehydrogenase 1.1.1.138 0.763
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.762
2x86 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.761
4b79 NADProbable short-chain dehydrogenase / 0.760
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.757
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.756
4qec NAPElxO / 0.756
1t2a NDPGDP-mannose 4,6 dehydratase 4.2.1.47 0.755
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.755
2q2v NADBeta-D-hydroxybutyrate dehydrogenase / 0.755
2z1m NDPGDP-mannose 4,6-dehydratase / 0.755
3w8e NAD3-hydroxybutyrate dehydrogenase / 0.755
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.755
4fc7 NAPPeroxisomal 2,4-dienoyl-CoA reductase 1.3.1.34 0.754
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.753
3ijr NADOxidoreductase, short chain dehydrogenase/reductase family / 0.753
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.753
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.753
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.752
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.752
4j7u NAPSepiapterin reductase 1.1.1.153 0.751
4qed NAPElxO / 0.751
1bxk NADdTDP-glucose 4,6-dehydratase 2 / 0.749
3rj9 NADAlcohol dehydrogenase 1.1.1.1 0.749
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.748
1x7g NAPPutative ketoacyl reductase 1.3.1 0.748
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.748
1oaa NAPSepiapterin reductase 1.1.1.153 0.747
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.747
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.747
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.747
1edo NAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic 1.1.1.100 0.746
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.746
2ztu NADD(-)-3-hydroxybutyrate dehydrogenase / 0.746
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.745
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.743
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.743
2ztl NADD(-)-3-hydroxybutyrate dehydrogenase / 0.743
1vl8 NAPOxidoreductase, short chain dehydrogenase/reductase family / 0.741
3orf NADDihydropteridine reductase 1.5.1.34 0.741
3h4v NAPPteridine reductase 1 1.5.1.33 0.740
1rpn NDPGDP-mannose 4,6-dehydratase / 0.739
4yai NAIC alpha-dehydrogenase / 0.739
2x6t NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.737
3a4v NADNDP-sugar epimerase / 0.737
4dmm NAP3-oxoacyl-[acyl-carrier-protein] reductase / 0.737
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.736
1eq2 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.735
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.735
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.735
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.735
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.735
3uxy NADShort-chain dehydrogenase/reductase SDR / 0.735
4yr9 NADL-threonine 3-dehydrogenase, mitochondrial 1.1.1.103 0.735
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.734
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.734
3tn7 NJPShort-chain alcohol dehydrogenase / 0.733
4kwh NAPReductase homolog / 0.733
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.732
1w73 NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.731
2wsb NADGalactitol dehydrogenase / 0.731
3gy0 NAPNAD(P)-dependent oxidoreductase / 0.731
3of2 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.731
3rue NADUDP-N-acetylglucosamine 4-epimerase / 0.731
4iqg NAPShort-chain dehydrogenase/reductase SDR / 0.731
4wec NADShort chain dehydrogenase / 0.731
2yy7 NADL-threonine dehydrogenase / 0.729
3bhi NAPCarbonyl reductase [NADPH] 1 1.1.1.184 0.729
3o26 NDPSalutaridine reductase / 0.729
2wyv NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.728
5bt9 NAP3-oxoacyl-(Acyl-carrier-protein) reductase / 0.728
4j7x NAPSepiapterin reductase 1.1.1.153 0.725
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.725
3l77 NJPShort-chain alcohol dehydrogenase / 0.723
3o03 NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) / 0.723
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.723
4pvd NDPNADPH-dependent methylglyoxal reductase GRE2 / 0.723
3o4r NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.722
3sx2 NADUncharacterized protein / 0.721
4dbz NDPPutative ketoacyl reductase 1.3.1 0.721
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.720
2bd0 NAPSepiapterin reductase / 0.720
4m87 NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.719
1u7t NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.718
4cr8 NADN-acylmannosamine 1-dehydrogenase 1.1.1.233 0.717
4z3d NDPCarbonyl reductase [NADPH] 1 1.1.1.184 0.717
2jah NDPClavaldehyde dehydrogenase / 0.716
3ajr NADNDP-sugar epimerase / 0.716
3geg NADShort-chain dehydrogenase/reductase SDR / 0.716
3p19 NDPPutative blue fluorescent protein / 0.716
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.716
1wvg APRCDP-glucose 4,6-dehydratase 4.2.1.45 0.715
2z95 NDPGDP-mannose 4,6-dehydratase / 0.715
4zju NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.715
4hwk NAPSepiapterin reductase 1.1.1.153 0.714
3sju NDPKeto reductase / 0.712
3vdq NAD3-hydroxybutyrate dehydrogenase / 0.711
1mg5 NAIAlcohol dehydrogenase 1.1.1.1 0.710
2rbe NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.710
4b4o NDPEpimerase family protein SDR39U1 / 0.710
5cpb NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.710
1iy8 NADLevodione reductase / 0.709
3oey NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.709
4egb NADdTDP-glucose 4,6-dehydratase / 0.709
4fj2 NAP17beta-hydroxysteroid dehydrogenase / 0.709
1bws NDPGDP-L-fucose synthase / 0.705
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.705
2ag5 NAD3-hydroxybutyrate dehydrogenase type 2 / 0.704
4fj0 NAP17beta-hydroxysteroid dehydrogenase / 0.702
2idz ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.701
3ai2 NDPNADPH-sorbose reductase / 0.700
1ipe NDPTropinone reductase 2 1.1.1.236 0.698
2bfo NDPPteridine reductase 1 1.5.1.33 0.698
2ydx NAPMethionine adenosyltransferase 2 subunit beta / 0.698
4imp NDPPolyketide synthase extender modules 3-4 / 0.698
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.697
3uic NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.697
3wmx NADNAD dependent epimerase/dehydratase / 0.697
5idw NAPShort-chain dehydrogenase/reductase SDR / 0.697
1bdb NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase / 0.696
3f1k NAPUncharacterized oxidoreductase YciK 1 0.696
3tox NAPPutative oxidoreductase / 0.694
1xkq NDPUncharacterized protein / 0.693
3r3s NADPutative oxidoreductase / 0.693
1ae1 NAPTropinone reductase 1 / 0.692
3qvx NADMyo-inositol-1-phosphate synthase (Ino1) / 0.692
1ek5 NADUDP-glucose 4-epimerase / 0.691
2ieb ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.691
3oew NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.691
4trn NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.691
4yag NAIC alpha-dehydrogenase / 0.691
3ai3 NDPNADPH-sorbose reductase / 0.690
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.690
4fj1 NAP17beta-hydroxysteroid dehydrogenase / 0.690
1b16 NAQAlcohol dehydrogenase 1.1.1.1 0.689
1u7t TDT3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.689
2b35 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.689
1x7h NDPPutative ketoacyl reductase 1.3.1 0.688
4cql NADEstradiol 17-beta-dehydrogenase 8 1.1.1.62 0.688
4o1m NADEnoyl-acyl carrier reductase / 0.688
5lc1 NADL-threonine 3-dehydrogenase / 0.687
1b14 NADAlcohol dehydrogenase 1.1.1.1 0.686
2b37 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.684
3a9w NADNDP-sugar epimerase / 0.684
3rfx NADUronate dehydrogenase / 0.684
4tqg NDPPutative dTDP-d-glucose 4 6-dehydratase / 0.684
5a1t NAIL-lactate dehydrogenase / 0.684
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.683
4e5y NDPGDP-L-fucose synthase 1.1.1.271 0.683
1enp NADEnoyl-[acyl-carrier-protein] reductase [NADH], chloroplastic 1.3.1.9 0.681
2c20 NADUDP-glucose 4-epimerase / 0.680
3mht SAHModification methylase HhaI 2.1.1.37 0.680
1qyv NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.679
5jy1 NADPutative short-chain dehydrogenase/reductase / 0.679
2x0i NAIMalate dehydrogenase / 0.678
2y99 NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase 1.3.1.56 0.678
4bii NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.678
4clo NAPPteridine reductase / 0.678
4oxy NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.678
4bqp NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.677
2aqk NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.676
4i5e NAPAlclohol dehydrogenase/short-chain dehydrogenase / 0.675
4rf2 NAPNADPH dependent R-specific alcohol dehydrogenase / 0.675
4bmv NAPShort-chain dehydrogenase / 0.674
1kc1 NDPdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.673
1qyx NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.673
1sby NADAlcohol dehydrogenase 1.1.1.1 0.673
2aqi NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.673
3qwf NAP17beta-hydroxysteroid dehydrogenase / 0.673
1b2l NDCAlcohol dehydrogenase 1.1.1.1 0.672
1fk8 NAD3-alpha-hydroxysteroid dehydrogenase/carbonyl reductase 1.1.1.50 0.672
1eny NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.671
3a28 NADL-2,3-butanediol dehydrogenase 1.1.1.76 0.671
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.670
2pr2 DG1Enoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.669
4bgi NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.669
2ntv P1HEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.668
2q2q NADBeta-D-hydroxybutyrate dehydrogenase / 0.667
5koi NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.667
2hmv ADPKtr system potassium uptake protein A / 0.666
5b1y NDP3-oxoacyl-[acyl-carrier-protein] reductase / 0.665
2aq8 NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.664
1fdu NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.663
4b8w NAPGDP-L-fucose synthase 1.1.1.271 0.663
2aqh NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.662
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.660
2p35 SAHTrans-aconitate 2-methyltransferase / 0.658
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.658
3qvt NAIMyo-inositol-1-phosphate synthase (Ino1) / 0.657
4bms NAPAlclohol dehydrogenase/short-chain dehydrogenase / 0.657
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.656
2zat NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.653
1o8c NDPProbable acrylyl-CoA reductase AcuI 1.3.1.84 0.650
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.650
2nq8 ZIDEnoyl-ACP reductase / 0.650
4l4x NDPAmphI / 0.650
4nbw NADShort-chain dehydrogenase/reductase SDR / 0.650