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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
2pzj NAD Putative nucleotide sugar epimerase/ dehydratase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 1.369
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 1.318
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 1.268
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 1.267
2p5y NADUDP-glucose 4-epimerase / 0.983
3icp NADNAD-dependent epimerase/dehydratase / 0.981
3ko8 NADNAD-dependent epimerase/dehydratase / 0.965
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.951
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.917
1orr NADCDP-paratose 2-epimerase / 0.916
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.912
4lk3 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.910
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.909
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.904
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.900
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.899
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.895
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.893
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.877
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.872
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.872
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.867
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.861
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.853
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.852
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.851
4hxy NDPPlm1 / 0.848
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.845
1i3l NADUDP-glucose 4-epimerase / 0.844
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.843
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.834
3aw9 NADNAD-dependent epimerase/dehydratase / 0.832
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.817
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.793
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.792
3s55 NADPutative short-chain dehydrogenase/reductase / 0.786
5d2e NAPMlnE / 0.781
2dte NAIGlucose 1-dehydrogenase related protein / 0.776
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.775
1w8d NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.773
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.771
4j7x NAPSepiapterin reductase 1.1.1.153 0.769
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.768
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.766
2c20 NADUDP-glucose 4-epimerase / 0.760
4ej0 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.760
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.759
1zem NADXylitol dehydrogenase / 0.757
3mje NDPAmphB / 0.756
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.754
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.754
1e3s NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.752
2c29 NAPDihydroflavonol 4-reductase / 0.752
1bxk NADdTDP-glucose 4,6-dehydratase 2 / 0.749
3aut NAIGlucose 1-dehydrogenase 4 1.1.1.47 0.744
4yuz S4MSpermidine synthase, putative / 0.743
3tsc NADUncharacterized protein / 0.741
1t2a NDPGDP-mannose 4,6 dehydratase 4.2.1.47 0.740
1g1a NADdTDP-glucose 4,6-dehydratase / 0.738
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.738
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.738
3a9w NADNDP-sugar epimerase / 0.737
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.735
1rwb NADGlucose 1-dehydrogenase 1.1.1.47 0.734
1h5q NAPNADP-dependent mannitol dehydrogenase 1.1.1.138 0.733
1bdb NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase / 0.728
3wds NADNADH-dependent quinuclidinone reductase / 0.728
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.726
1e6w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.725
2wyv NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.724
1edo NAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic 1.1.1.100 0.723
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.723
3ak4 NADNADH-dependent quinuclidinone reductase / 0.723
4nec SAHPutative SAM-dependent methyltransferase / 0.723
2p5u NADUDP-glucose 4-epimerase / 0.722
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.718
2wdz NADGalactitol dehydrogenase / 0.718
2yut NAPPutative short-chain oxidoreductase / 0.718
1vl8 NAPOxidoreductase, short chain dehydrogenase/reductase family / 0.715
2o23 NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.715
1e3w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.714
1w73 NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.714
4dbz NDPPutative ketoacyl reductase 1.3.1 0.713
1rpn NDPGDP-mannose 4,6-dehydratase / 0.712
1y8q ATPSUMO-activating enzyme subunit 2 6.3.2 0.712
1qyv NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.711
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.711
4idg NADPutative UDP-glucose 4-epimerase / 0.711
1sny NAPLD36273p / 0.710
2hrb NAPCarbonyl reductase [NADPH] 3 1.1.1.184 0.710
4qec NAPElxO / 0.709
1kc1 NDPdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.708
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.708
3r3s NADPutative oxidoreductase / 0.708
3rue NADUDP-N-acetylglucosamine 4-epimerase / 0.707
4imp NDPPolyketide synthase extender modules 3-4 / 0.707
4pvd NDPNADPH-dependent methylglyoxal reductase GRE2 / 0.707
3ijr NADOxidoreductase, short chain dehydrogenase/reductase family / 0.706
3vdq NAD3-hydroxybutyrate dehydrogenase / 0.706
4y9d NAIC alpha-dehydrogenase / 0.706
3o03 NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) / 0.705
5idw NAPShort-chain dehydrogenase/reductase SDR / 0.705
1bc5 SAHChemotaxis protein methyltransferase 2.1.1.80 0.704
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.704
2ggs NDPdTDP-4-dehydrorhamnose reductase / 0.703
3oey NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.703
4fj2 NAP17beta-hydroxysteroid dehydrogenase / 0.703
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.702
1rjd SAMLeucine carboxyl methyltransferase 1 2.1.1.233 0.702
3oew NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.701
2o06 MTASpermidine synthase 2.5.1.16 0.700
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.700
4z3d NDPCarbonyl reductase [NADPH] 1 1.1.1.184 0.700
3wmx NADNAD dependent epimerase/dehydratase / 0.699
2wsb NADGalactitol dehydrogenase / 0.698
5lc1 NADL-threonine 3-dehydrogenase / 0.698
3gy0 NAPNAD(P)-dependent oxidoreductase / 0.697
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.697
2ztl NADD(-)-3-hydroxybutyrate dehydrogenase / 0.696
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.696
4yv2 S4MSpermidine synthase, putative / 0.695
2aqh NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.694
3wv8 ATPHmd co-occurring protein HcgE / 0.693
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.692
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.692
3go4 SAHUncharacterized protein / 0.691
3lcc SAHThiocyanate methyltransferase 1 / 0.691
4id9 NADPutative UDP-glucose 4-epimerase / 0.691
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.690
2b4q NAPRhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.689
2yqz SAMUncharacterized protein / 0.689
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.689
4yag NAIC alpha-dehydrogenase / 0.689
1nbh SAMGlycine N-methyltransferase 2.1.1.20 0.688
1ek5 NADUDP-glucose 4-epimerase / 0.687
3o26 NDPSalutaridine reductase / 0.687
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.687
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.685
2g1p SAHDNA adenine methylase 2.1.1.72 0.684
2yy7 NADL-threonine dehydrogenase / 0.684
2ztu NADD(-)-3-hydroxybutyrate dehydrogenase / 0.684
3of2 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.684
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.684
5jyd NADShort chain dehydrogenase / 0.684
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.683
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.683
1mg5 NAIAlcohol dehydrogenase 1.1.1.1 0.682
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.682
2hmv ADPKtr system potassium uptake protein A / 0.681
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.681
2p35 SAHTrans-aconitate 2-methyltransferase / 0.680
4wec NADShort chain dehydrogenase / 0.680
4zju NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.680
5bp9 SAHPutative methyltransferase protein / 0.680
5bsg NAPPyrroline-5-carboxylate reductase / 0.680
1x7g NAPPutative ketoacyl reductase 1.3.1 0.679
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.679
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.679
4fc7 NAPPeroxisomal 2,4-dienoyl-CoA reductase 1.3.1.34 0.679
4hwk NAPSepiapterin reductase 1.1.1.153 0.679
3wv7 ADPHmd co-occurring protein HcgE / 0.678
4eak ATP5'-AMP-activated protein kinase subunit gamma-1 / 0.678
4fp9 SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.678
5jr3 SAHCarminomycin 4-O-methyltransferase DnrK 2.1.1.292 0.678
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.677
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.677
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.677
1pr9 NAPL-xylulose reductase 1.1.1.10 0.676
4m87 NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.676
4tqg NDPPutative dTDP-d-glucose 4 6-dehydratase / 0.676
4yai NAIC alpha-dehydrogenase / 0.676
1kr5 SAHProtein-L-isoaspartate(D-aspartate) O-methyltransferase 2.1.1.77 0.675
2x86 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.675
3uic NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.675
3v97 SAHRibosomal RNA large subunit methyltransferase K/L 2.1.1.173 0.675
3h4v NAPPteridine reductase 1 1.5.1.33 0.674
1oaa NAPSepiapterin reductase 1.1.1.153 0.673
3rj9 NADAlcohol dehydrogenase 1.1.1.1 0.673
1p44 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.672
3w8e NAD3-hydroxybutyrate dehydrogenase / 0.672
4dmm NAP3-oxoacyl-[acyl-carrier-protein] reductase / 0.672
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.671
3ai3 NDPNADPH-sorbose reductase / 0.671
4fj0 NAP17beta-hydroxysteroid dehydrogenase / 0.671
4j7u NAPSepiapterin reductase 1.1.1.153 0.671
1la2 NADInositol-3-phosphate synthase 5.5.1.4 0.670
2y99 NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase 1.3.1.56 0.670
3rfx NADUronate dehydrogenase / 0.670
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.670
4u7w NDPMxaA / 0.670
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.669
1h6a NDPGlucose--fructose oxidoreductase 1.1.99.28 0.668
1rje SAHLeucine carboxyl methyltransferase 1 2.1.1.233 0.668
2zat NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.667
4e2x SAHMethyltransferase / 0.667
3qwf NAP17beta-hydroxysteroid dehydrogenase / 0.666
5koi NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.666
3kpb SAMUncharacterized protein MJ0100 / 0.664
3ou6 SAMSAM-dependent methyltransferase / 0.664
1h6d NDPGlucose--fructose oxidoreductase 1.1.99.28 0.663
2bm9 SAMCephalosporin hydroxylase CmcI / 0.663
5jy1 NADPutative short-chain dehydrogenase/reductase / 0.663
1c1d NAIPhenylalanine dehydrogenase / 0.662
1qyx NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.662
3a25 SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.661
4rtk SAHDNA adenine methylase 2.1.1.72 0.661
5bt9 NAP3-oxoacyl-(Acyl-carrier-protein) reductase / 0.661
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.660
1z7e ATPBifunctional polymyxin resistance protein ArnA / 0.660
2z95 NDPGDP-mannose 4,6-dehydratase / 0.660
3a26 MTAtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.660
4mwz SAMPhosphoethanolamine N-methyltransferase, putative / 0.660
2bfo NDPPteridine reductase 1 1.5.1.33 0.659
2zw9 SAMtRNA wybutosine-synthesizing protein 4 2.1.1.290 0.659
4z44 FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.659
1qzz SAMAclacinomycin 10-hydroxylase RdmB 4.1.1 0.658
2gs9 SAHUncharacterized protein / 0.658
3d3w NAPL-xylulose reductase 1.1.1.10 0.658
4o29 SAHProtein-L-isoaspartate O-methyltransferase / 0.658
1bws NDPGDP-L-fucose synthase / 0.657
3orf NADDihydropteridine reductase 1.5.1.34 0.657
1uay ADNOxidoreductase / 0.656
1x7h NDPPutative ketoacyl reductase 1.3.1 0.656
5a02 NAPGlucose-fructose oxidoreductase / 0.656
4cr8 NADN-acylmannosamine 1-dehydrogenase 1.1.1.233 0.655
5a1t NAIL-lactate dehydrogenase / 0.655
2z1m NDPGDP-mannose 4,6-dehydratase / 0.654
3fws ANPTranscriptional repressor CcpN / 0.654
4hbg NDP3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.654
1iy8 NADLevodione reductase / 0.653
2aqi NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.653
2zb3 NDPProstaglandin reductase 2 1.3.1.48 0.653
4trn NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.653
3q2k NAIProbable oxidoreductase / 0.652
4dre NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.652
4qnu GEKtRNA U34 carboxymethyltransferase / 0.652
2i62 SAHNicotinamide N-methyltransferase 2.1.1.1 0.651
3bhi NAPCarbonyl reductase [NADPH] 1 1.1.1.184 0.651
4e5y NDPGDP-L-fucose synthase 1.1.1.271 0.651
4b79 NADProbable short-chain dehydrogenase / 0.650
5c1g GDUHisto-blood group ABO system transferase / 0.650