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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
1nah NAD UDP-glucose 4-epimerase 5.1.3.2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1nah NADUDP-glucose 4-epimerase 5.1.3.2 1.440
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 1.286
1nai NADUDP-glucose 4-epimerase 5.1.3.2 1.059
1i3l NADUDP-glucose 4-epimerase / 1.051
2p5y NADUDP-glucose 4-epimerase / 0.992
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.955
3icp NADNAD-dependent epimerase/dehydratase / 0.953
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.941
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.925
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.924
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.918
3ko8 NADNAD-dependent epimerase/dehydratase / 0.907
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.899
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.898
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.897
1orr NADCDP-paratose 2-epimerase / 0.894
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.892
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.888
2p5u NADUDP-glucose 4-epimerase / 0.885
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.884
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.872
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.858
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.857
3tsc NADUncharacterized protein / 0.857
3aw9 NADNAD-dependent epimerase/dehydratase / 0.856
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.856
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.854
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.854
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.829
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.827
3s55 NADPutative short-chain dehydrogenase/reductase / 0.822
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.814
3sx2 NADUncharacterized protein / 0.805
1e6w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.802
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.800
2wsb NADGalactitol dehydrogenase / 0.798
4yag NAIC alpha-dehydrogenase / 0.797
1zem NADXylitol dehydrogenase / 0.796
4yai NAIC alpha-dehydrogenase / 0.794
4ej0 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.793
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.789
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.789
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.782
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.782
2x6t NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.781
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.780
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.779
1iy8 NADLevodione reductase / 0.771
2dte NAIGlucose 1-dehydrogenase related protein / 0.770
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.767
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.766
2c20 NADUDP-glucose 4-epimerase / 0.765
3a4v NADNDP-sugar epimerase / 0.764
1e3s NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.763
3mje NDPAmphB / 0.763
1bdb NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase / 0.758
1ek5 NADUDP-glucose 4-epimerase / 0.757
2q28 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.755
1e3w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.753
4hxy NDPPlm1 / 0.753
1mg5 NAIAlcohol dehydrogenase 1.1.1.1 0.752
2x86 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.750
3oa2 NADUDP-N-acetyl-2-amino-2-deoxy-D-glucuronate oxidase / 0.745
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.745
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.743
4yac NAIC alpha-dehydrogenase / 0.740
3ak4 NADNADH-dependent quinuclidinone reductase / 0.737
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.737
3wds NADNADH-dependent quinuclidinone reductase / 0.737
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.735
2ji7 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.732
3rue NADUDP-N-acetylglucosamine 4-epimerase / 0.732
1edo NAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic 1.1.1.100 0.731
2c31 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.731
2jib ADPOxalyl-CoA decarboxylase 4.1.1.8 0.731
3rw9 DSHSpermidine synthase 2.5.1.16 0.731
4idg NADPutative UDP-glucose 4-epimerase / 0.731
2ji6 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.730
2o06 MTASpermidine synthase 2.5.1.16 0.726
2pk3 A2RGDP-6-deoxy-D-mannose reductase / 0.726
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.726
5d2e NAPMlnE / 0.726
3p19 NDPPutative blue fluorescent protein / 0.724
4qec NAPElxO / 0.724
4yv2 S4MSpermidine synthase, putative / 0.723
1qaq SFGrRNA adenine N-6-methyltransferase 2.1.1.184 0.720
2ji9 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.720
4lk3 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.720
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.719
3go4 SAHUncharacterized protein / 0.719
3o03 NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) / 0.718
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.717
4nbw NADShort-chain dehydrogenase/reductase SDR / 0.717
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.716
1wvg APRCDP-glucose 4,6-dehydratase 4.2.1.45 0.715
2jah NDPClavaldehyde dehydrogenase / 0.711
2ore SAHDNA adenine methylase 2.1.1.72 0.711
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.711
5lc1 NADL-threonine 3-dehydrogenase / 0.710
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.708
1eq2 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.706
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.706
2o23 NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.705
3a28 NADL-2,3-butanediol dehydrogenase 1.1.1.76 0.705
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.705
2wdz NADGalactitol dehydrogenase / 0.703
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.702
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.702
4nec SAHPutative SAM-dependent methyltransferase / 0.701
4yuv S4MSpermidine synthase, putative / 0.701
3g49 NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.699
4yuz S4MSpermidine synthase, putative / 0.699
1nbh SAMGlycine N-methyltransferase 2.1.1.20 0.698
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.698
4fc7 NAPPeroxisomal 2,4-dienoyl-CoA reductase 1.3.1.34 0.698
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.697
4j7u NAPSepiapterin reductase 1.1.1.153 0.697
4qed NAPElxO / 0.697
4wec NADShort chain dehydrogenase / 0.697
1b2l NDCAlcohol dehydrogenase 1.1.1.1 0.696
4j7x NAPSepiapterin reductase 1.1.1.153 0.696
4k28 NADShikimate dehydrogenase family protein / 0.696
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.695
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.695
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.694
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.693
4dmm NAP3-oxoacyl-[acyl-carrier-protein] reductase / 0.693
4iqg NAPShort-chain dehydrogenase/reductase SDR / 0.693
2hsd NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.690
1g0n NDPTetrahydroxynaphthalene reductase 1.1.1.252 0.689
4b4o NDPEpimerase family protein SDR39U1 / 0.689
1zh8 NAPUncharacterized protein / 0.687
3h4v NAPPteridine reductase 1 1.5.1.33 0.687
3kpf FADPolyamine oxidase 1.5.3.14 0.687
4b79 NADProbable short-chain dehydrogenase / 0.687
4u7w NDPMxaA / 0.687
4yv0 S4MSpermidine synthase, putative / 0.687
1sny NAPLD36273p / 0.686
1rpn NDPGDP-mannose 4,6-dehydratase / 0.685
2ewm NAD(S)-1-Phenylethanol dehydrogenase 1.1.1.311 0.685
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.685
4hb9 FADUncharacterized protein / 0.685
4z3d NDPCarbonyl reductase [NADPH] 1 1.1.1.184 0.685
1uay ADNOxidoreductase / 0.684
4xq9 NADHomospermidine synthase 2.5.1.44 0.684
1hku NADC-terminal-binding protein 1 1.1.1 0.683
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.683
2yy7 NADL-threonine dehydrogenase / 0.683
3ec7 NADInositol 2-dehydrogenase / 0.682
3mht SAHModification methylase HhaI 2.1.1.37 0.682
1u7t TDT3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.681
2yut NAPPutative short-chain oxidoreductase / 0.681
3o26 NDPSalutaridine reductase / 0.681
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.681
3rj9 NADAlcohol dehydrogenase 1.1.1.1 0.680
3aut NAIGlucose 1-dehydrogenase 4 1.1.1.47 0.679
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.678
3ijr NADOxidoreductase, short chain dehydrogenase/reductase family / 0.678
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.678
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.677
5a03 NDPGlucose-fructose oxidoreductase / 0.677
1f8f NADBenzyl alcohol dehydrogenase / 0.676
3fws ANPTranscriptional repressor CcpN / 0.676
3rfx NADUronate dehydrogenase / 0.676
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.676
4jk3 NADUncharacterized protein / 0.676
4yr9 NADL-threonine 3-dehydrogenase, mitochondrial 1.1.1.103 0.676
5a05 NDPGlucose-fructose oxidoreductase / 0.676
3bhi NAPCarbonyl reductase [NADPH] 1 1.1.1.184 0.675
3kbo NDPGlyoxylate/hydroxypyruvate reductase A / 0.675
4dre NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.675
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.674
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.673
2p35 SAHTrans-aconitate 2-methyltransferase / 0.673
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.673
4fn4 NADShort chain dehydrogenase / 0.673
2eq7 NADDihydrolipoyl dehydrogenase / 0.672
1fdu NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.669
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.669
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.669
2ggs NDPdTDP-4-dehydrorhamnose reductase / 0.669
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.669
3w8e NAD3-hydroxybutyrate dehydrogenase / 0.669
4bkq NAIEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.669
4dbz NDPPutative ketoacyl reductase 1.3.1 0.669
4egb NADdTDP-glucose 4,6-dehydratase / 0.669
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.669
4y0k NAPAntE / 0.669
2z1m NDPGDP-mannose 4,6-dehydratase / 0.668
3wmx NADNAD dependent epimerase/dehydratase / 0.668
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.668
1zmc NADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.667
2b4q NAPRhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.667
2gsd NADFormate dehydrogenase / 0.667
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.666
1sby NADAlcohol dehydrogenase 1.1.1.1 0.665
1y56 ATPUncharacterized protein / 0.665
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.665
3qw2 NADMyo-inositol-1-phosphate synthase (Ino1) / 0.665
4rtk SAHDNA adenine methylase 2.1.1.72 0.665
5a1t NAIL-lactate dehydrogenase / 0.665
5jla NADPutative short-chain dehydrogenase/reductase / 0.665
4iv8 SAMPhosphoethanolamine N-methyltransferase,putative / 0.664
1kc1 NDPdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.663
2c29 NAPDihydroflavonol 4-reductase / 0.663
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.663
3jyn NDPQuinone oxidoreductase / 0.663
4plp NADHomospermidine synthase 2.5.1.44 0.663
4y9d NAIC alpha-dehydrogenase / 0.663
1rwb NADGlucose 1-dehydrogenase 1.1.1.47 0.662
2ekp NAD2-deoxy-D-gluconate 3-dehydrogenase / 0.662
3ajr NADNDP-sugar epimerase / 0.662
4fw8 NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.662
1g6k NADGlucose 1-dehydrogenase 1.1.1.47 0.661
1npd NADQuinate/shikimate dehydrogenase / 0.661
1z7e ATPBifunctional polymyxin resistance protein ArnA / 0.661
2y99 NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase 1.3.1.56 0.661
1x7g NAPPutative ketoacyl reductase 1.3.1 0.660
1y8q ATPSUMO-activating enzyme subunit 2 6.3.2 0.660
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.660
1nw6 SFGModification methylase RsrI 2.1.1.72 0.659
2hrb NAPCarbonyl reductase [NADPH] 3 1.1.1.184 0.658
2ztu NADD(-)-3-hydroxybutyrate dehydrogenase / 0.658
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.658
3ikt NADRedox-sensing transcriptional repressor Rex / 0.658
3nyc FADFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.658
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.658
5a06 NDPGlucose-fructose oxidoreductase / 0.658
2aqi NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.657
2eer NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.657
3bgi SAHThiopurine S-methyltransferase 2.1.1.67 0.657
3tn7 NJPShort-chain alcohol dehydrogenase / 0.657
3uce NDPDehydrogenase / 0.657
4xcv NDPProbable hydroxyacid dehydrogenase protein / 0.657
5a02 NAPGlucose-fructose oxidoreductase / 0.657
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.656
2dpm SAMModification methylase DpnIIA 2.1.1.72 0.656
5bt9 NAP3-oxoacyl-(Acyl-carrier-protein) reductase / 0.656
1ie3 NADMalate dehydrogenase / 0.655
1xcb NADRedox-sensing transcriptional repressor Rex / 0.655
2pv7 NADT-protein 1.3.1.12 0.655
1h6c NDPGlucose--fructose oxidoreductase 1.1.99.28 0.654
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.654
4weq NAPNAD-dependent dehydrogenase / 0.654
5a04 NDPGlucose-fructose oxidoreductase / 0.654
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.653
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.653
2bgl NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.653
3abi NADUncharacterized protein / 0.653
3ai2 NDPNADPH-sorbose reductase / 0.653
3bmo NAPPteridine reductase / 0.653
3uxy NADShort-chain dehydrogenase/reductase SDR / 0.653
4mb2 ATPUncharacterized protein / 0.653
2bm9 SAMCephalosporin hydroxylase CmcI / 0.651
2p9c NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.651
3kb6 NADD-lactate dehydrogenase / 0.651
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.651
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.651
4y1b NAPAntE / 0.651
1fk8 NAD3-alpha-hydroxysteroid dehydrogenase/carbonyl reductase 1.1.1.50 0.650
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.650
1p44 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.650
2nv6 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.650
2qa2 FADPolyketide oxygenase CabE / 0.650
3dmg SAHProbable ribosomal RNA small subunit methyltransferase / 0.650