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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
2yut NAP Putative short-chain oxidoreductase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
2yut NAPPutative short-chain oxidoreductase / 1.357
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.859
4u7w NDPMxaA / 0.834
3p19 NDPPutative blue fluorescent protein / 0.815
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.813
4kwh NAPReductase homolog / 0.813
3rku NAPNADP-dependent 3-hydroxy acid dehydrogenase / 0.809
4j7u NAPSepiapterin reductase 1.1.1.153 0.803
3bhi NAPCarbonyl reductase [NADPH] 1 1.1.1.184 0.797
3l77 NJPShort-chain alcohol dehydrogenase / 0.796
2c29 NAPDihydroflavonol 4-reductase / 0.793
3of2 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.792
4b79 NADProbable short-chain dehydrogenase / 0.792
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.791
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.791
1edo NAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic 1.1.1.100 0.790
2jah NDPClavaldehyde dehydrogenase / 0.790
2ztl NADD(-)-3-hydroxybutyrate dehydrogenase / 0.789
2q2v NADBeta-D-hydroxybutyrate dehydrogenase / 0.788
4qec NAPElxO / 0.787
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.784
2idz ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.784
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.783
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.781
4z3d NDPCarbonyl reductase [NADPH] 1 1.1.1.184 0.780
2ieb ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.779
4rf2 NAPNADPH dependent R-specific alcohol dehydrogenase / 0.774
1oaa NAPSepiapterin reductase 1.1.1.153 0.772
1sny NAPLD36273p / 0.771
4oxy NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.771
3qwf NAP17beta-hydroxysteroid dehydrogenase / 0.769
3o26 NDPSalutaridine reductase / 0.768
2o23 NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.766
5d2e NAPMlnE / 0.766
2wsb NADGalactitol dehydrogenase / 0.765
4pvd NDPNADPH-dependent methylglyoxal reductase GRE2 / 0.765
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.764
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.764
3o03 NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) / 0.763
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.762
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.760
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.759
3gy0 NAPNAD(P)-dependent oxidoreductase / 0.758
2b37 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.757
3a28 NADL-2,3-butanediol dehydrogenase 1.1.1.76 0.756
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.755
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.755
4j7x NAPSepiapterin reductase 1.1.1.153 0.755
3ak4 NADNADH-dependent quinuclidinone reductase / 0.754
3oew NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.753
4qed NAPElxO / 0.751
3sx2 NADUncharacterized protein / 0.750
4hwk NAPSepiapterin reductase 1.1.1.153 0.750
4hxy NDPPlm1 / 0.750
2b35 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.748
2rbe NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.748
3oey NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.748
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.746
4bqp NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.746
2ie0 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.745
1cyd NDPCarbonyl reductase [NADPH] 2 1.1.1.184 0.744
4dmm NAP3-oxoacyl-[acyl-carrier-protein] reductase / 0.744
1x7h NDPPutative ketoacyl reductase 1.3.1 0.743
3d3w NAPL-xylulose reductase 1.1.1.10 0.743
4bmv NAPShort-chain dehydrogenase / 0.742
2ggs NDPdTDP-4-dehydrorhamnose reductase / 0.741
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.741
1fdu NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.740
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.740
1eny NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.736
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.736
1pr9 NAPL-xylulose reductase 1.1.1.10 0.735
2aqi NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.734
5bt9 NAP3-oxoacyl-(Acyl-carrier-protein) reductase / 0.734
1xkq NDPUncharacterized protein / 0.733
1zem NADXylitol dehydrogenase / 0.733
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.733
3s55 NADPutative short-chain dehydrogenase/reductase / 0.733
5cpb NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.733
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.732
3wmx NADNAD dependent epimerase/dehydratase / 0.732
3orf NADDihydropteridine reductase 1.5.1.34 0.731
1h5q NAPNADP-dependent mannitol dehydrogenase 1.1.1.138 0.730
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.730
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.730
2p5y NADUDP-glucose 4-epimerase / 0.730
3mje NDPAmphB / 0.730
5lc1 NADL-threonine 3-dehydrogenase / 0.730
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.729
4tqg NDPPutative dTDP-d-glucose 4 6-dehydratase / 0.729
1e3w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.728
3o4r NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.728
4bgi NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.727
1e6w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.726
1rpn NDPGDP-mannose 4,6-dehydratase / 0.726
2ydx NAPMethionine adenosyltransferase 2 subunit beta / 0.726
2yy7 NADL-threonine dehydrogenase / 0.726
3wds NADNADH-dependent quinuclidinone reductase / 0.726
3bmo NAPPteridine reductase / 0.724
4bii NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.724
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.723
5idw NAPShort-chain dehydrogenase/reductase SDR / 0.723
1rwb NADGlucose 1-dehydrogenase 1.1.1.47 0.722
1x7g NAPPutative ketoacyl reductase 1.3.1 0.722
4dre NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.721
1u7t TDT3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.720
2q2q NADBeta-D-hydroxybutyrate dehydrogenase / 0.720
4trn NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.720
2aq8 NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.719
3uic NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.719
1t2a NDPGDP-mannose 4,6 dehydratase 4.2.1.47 0.718
2hrb NAPCarbonyl reductase [NADPH] 3 1.1.1.184 0.718
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.718
3rj9 NADAlcohol dehydrogenase 1.1.1.1 0.718
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.717
3uce NDPDehydrogenase / 0.717
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.716
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.715
4dti NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.714
4eso NAPPutative oxidoreductase / 0.714
4fj0 NAP17beta-hydroxysteroid dehydrogenase / 0.714
1w73 NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.713
2b36 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.713
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.713
4m87 NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.713
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.711
4fj2 NAP17beta-hydroxysteroid dehydrogenase / 0.711
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.710
3tn7 NJPShort-chain alcohol dehydrogenase / 0.708
2wdz NADGalactitol dehydrogenase / 0.707
4dqu NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.707
2nv6 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.706
3ai3 NDPNADPH-sorbose reductase / 0.706
3g49 NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.706
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.706
2x6t NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.705
3anm NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.705
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.704
4cql NADEstradiol 17-beta-dehydrogenase 8 1.1.1.62 0.704
4ej0 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.704
1dhr NADDihydropteridine reductase 1.5.1.34 0.703
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.703
3ijr NADOxidoreductase, short chain dehydrogenase/reductase family / 0.703
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.703
4iqg NAPShort-chain dehydrogenase/reductase SDR / 0.703
2ntv P1HEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.701
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.701
3tsc NADUncharacterized protein / 0.701
4fj1 NAP17beta-hydroxysteroid dehydrogenase / 0.701
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.701
2ag5 NAD3-hydroxybutyrate dehydrogenase type 2 / 0.700
3icp NADNAD-dependent epimerase/dehydratase / 0.699
4fn4 NADShort chain dehydrogenase / 0.699
4yag NAIC alpha-dehydrogenase / 0.699
3a14 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.698
3u4c NDPNADPH-dependent reductase BacG / 0.698
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.697
2ekp NAD2-deoxy-D-gluconate 3-dehydrogenase / 0.697
3h4v NAPPteridine reductase 1 1.5.1.33 0.697
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.697
2ntj P1HEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.696
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.696
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.696
2pr2 DG1Enoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.695
3qrw NDPPutative ketoacyl reductase 1.3.1 0.695
4dbz NDPPutative ketoacyl reductase 1.3.1 0.695
1orr NADCDP-paratose 2-epimerase / 0.694
2bd0 NAPSepiapterin reductase / 0.694
2wyv NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.694
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.693
3ko8 NADNAD-dependent epimerase/dehydratase / 0.693
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.693
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.692
4i5e NAPAlclohol dehydrogenase/short-chain dehydrogenase / 0.692
3uxy NADShort-chain dehydrogenase/reductase SDR / 0.691
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.690
5b1y NDP3-oxoacyl-[acyl-carrier-protein] reductase / 0.690
5jyd NADShort chain dehydrogenase / 0.690
1dir NADDihydropteridine reductase 1.5.1.34 0.689
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.689
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.689
4xyb NDPFormate dehydrogenase / 0.689
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.688
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.688
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.688
4oqy NDP(S)-imine reductase / 0.688
4wec NADShort chain dehydrogenase / 0.686
1fk8 NAD3-alpha-hydroxysteroid dehydrogenase/carbonyl reductase 1.1.1.50 0.685
1mg5 NAIAlcohol dehydrogenase 1.1.1.1 0.685
1w8d NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.685
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.685
2aqk NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.684
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.684
2c20 NADUDP-glucose 4-epimerase / 0.684
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.684
4eue NAITrans-2-enoyl-CoA reductase [NADH] / 0.684
3aw9 NADNAD-dependent epimerase/dehydratase / 0.683
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.683
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.683
5koi NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.683
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.681
2aqh NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.681
2h9i EADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.681
2y99 NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase 1.3.1.56 0.681
4clo NAPPteridine reductase / 0.681
1ipe NDPTropinone reductase 2 1.1.1.236 0.680
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.680
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.679
4b8w NAPGDP-L-fucose synthase 1.1.1.271 0.678
4imp NDPPolyketide synthase extender modules 3-4 / 0.678
1i36 NAPConserved protein / 0.677
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.676
4xb2 NDP319aa long hypothetical homoserine dehydrogenase / 0.676
1jvs NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.675
1vl8 NAPOxidoreductase, short chain dehydrogenase/reductase family / 0.675
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.675
5aq1 NDPGlucose-6-phosphate 1-dehydrogenase / 0.675
1b15 NAEAlcohol dehydrogenase 1.1.1.1 0.674
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.674
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.674
4fc7 NAPPeroxisomal 2,4-dienoyl-CoA reductase 1.3.1.34 0.674
2ztu NADD(-)-3-hydroxybutyrate dehydrogenase / 0.673
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.673
3h2s NDPPutative NADH-flavin reductase / 0.673
4b4o NDPEpimerase family protein SDR39U1 / 0.673
4bms NAPAlclohol dehydrogenase/short-chain dehydrogenase / 0.673
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.672
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.672
4zju NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.672
5a04 NDPGlucose-fructose oxidoreductase / 0.672
1bdb NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase / 0.671
3aut NAIGlucose 1-dehydrogenase 4 1.1.1.47 0.671
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.670
3sju NDPKeto reductase / 0.670
2vrb NAPTriphenylmethane reductase / 0.668
2yjz NAPMetalloreductase STEAP4 1.16.1 0.668
1qyv NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.667
2bfo NDPPteridine reductase 1 1.5.1.33 0.667
4hbg NDP3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.666
1bws NDPGDP-L-fucose synthase / 0.665
1qyx NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.665
2jl1 NAPTriphenylmethane reductase / 0.665
3anl NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.664
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.664
4idg NADPutative UDP-glucose 4-epimerase / 0.664
1b14 NADAlcohol dehydrogenase 1.1.1.1 0.663
1enz NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.663
3jyn NDPQuinone oxidoreductase / 0.663
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.662
3ulk NDPKetol-acid reductoisomerase (NADP(+)) / 0.662
5a02 NAPGlucose-fructose oxidoreductase / 0.662
2pk3 A2RGDP-6-deoxy-D-mannose reductase / 0.661
3r3s NADPutative oxidoreductase / 0.661
1pzh NADLactate dehydrogenase / 0.660
1b16 NAQAlcohol dehydrogenase 1.1.1.1 0.659
1q0q NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.659
1sby NADAlcohol dehydrogenase 1.1.1.1 0.659
4lk3 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.659
4o1m NADEnoyl-acyl carrier reductase / 0.659
1fxs NAPGDP-L-fucose synthase / 0.658
1xq6 NAPUncharacterized protein At5g02240 / 0.658
1ybm NAPUncharacterized protein At5g02240 / 0.657
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 0.657
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.657
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.656
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.655
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.655
2b4q NAPRhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.654
1g0n NDPTetrahydroxynaphthalene reductase 1.1.1.252 0.653
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.653
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.653
4id9 NADPutative UDP-glucose 4-epimerase / 0.653
1o6z NADMalate dehydrogenase / 0.651
4a3u FMNNADH:flavin oxidoreductase/NADH oxidase / 0.651
4jic FMNGTN Reductase / 0.651
1hdo NAPFlavin reductase (NADPH) / 0.650
3qvx NADMyo-inositol-1-phosphate synthase (Ino1) / 0.650
4l4x NDPAmphI / 0.650
5a05 NDPGlucose-fructose oxidoreductase / 0.650
5a06 NDPGlucose-fructose oxidoreductase / 0.650
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.650