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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
3sxp NAD ADP-L-glycero-D-mannoheptose-6-epimerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 1.270
2p5y NADUDP-glucose 4-epimerase / 0.997
3icp NADNAD-dependent epimerase/dehydratase / 0.972
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.963
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.958
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.948
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.937
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.926
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.910
3aw9 NADNAD-dependent epimerase/dehydratase / 0.908
3ko8 NADNAD-dependent epimerase/dehydratase / 0.906
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.894
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.891
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.890
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.887
1i3l NADUDP-glucose 4-epimerase / 0.881
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.876
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.868
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.867
4ej0 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.866
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.862
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.862
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.858
2x6t NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.854
2x86 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.846
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.839
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.833
4hxy NDPPlm1 / 0.825
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.824
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.820
4u7w NDPMxaA / 0.819
1g6k NADGlucose 1-dehydrogenase 1.1.1.47 0.815
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.815
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.803
2p5u NADUDP-glucose 4-epimerase / 0.801
4lk3 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.800
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.796
1eq2 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.795
1w8d NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.795
2c29 NAPDihydroflavonol 4-reductase / 0.795
2ggs NDPdTDP-4-dehydrorhamnose reductase / 0.794
2o23 NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.786
3mje NDPAmphB / 0.786
5d2e NAPMlnE / 0.786
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.785
1g1a NADdTDP-glucose 4,6-dehydratase / 0.783
1zem NADXylitol dehydrogenase / 0.783
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.783
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.782
1e6w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.781
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.781
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.781
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.781
3s55 NADPutative short-chain dehydrogenase/reductase / 0.780
1rpn NDPGDP-mannose 4,6-dehydratase / 0.779
1sny NAPLD36273p / 0.779
1h5q NAPNADP-dependent mannitol dehydrogenase 1.1.1.138 0.777
1rwb NADGlucose 1-dehydrogenase 1.1.1.47 0.776
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.774
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.773
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.773
1orr NADCDP-paratose 2-epimerase / 0.770
1e3w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.768
4idg NADPutative UDP-glucose 4-epimerase / 0.768
3uce NDPDehydrogenase / 0.766
4fc7 NAPPeroxisomal 2,4-dienoyl-CoA reductase 1.3.1.34 0.764
1pr9 NAPL-xylulose reductase 1.1.1.10 0.756
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.756
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.755
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.754
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.754
1w73 NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.751
2wsb NADGalactitol dehydrogenase / 0.751
3g49 NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.750
4b79 NADProbable short-chain dehydrogenase / 0.750
1oaa NAPSepiapterin reductase 1.1.1.153 0.749
1e3s NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.748
3o03 NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) / 0.748
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.746
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.744
1bxk NADdTDP-glucose 4,6-dehydratase 2 / 0.742
3oey NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.739
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.738
4egb NADdTDP-glucose 4,6-dehydratase / 0.737
4e5y NDPGDP-L-fucose synthase 1.1.1.271 0.736
1cyd NDPCarbonyl reductase [NADPH] 2 1.1.1.184 0.735
2c20 NADUDP-glucose 4-epimerase / 0.735
2wdz NADGalactitol dehydrogenase / 0.734
3a9w NADNDP-sugar epimerase / 0.734
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.734
3wds NADNADH-dependent quinuclidinone reductase / 0.734
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.733
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.733
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.732
2dte NAIGlucose 1-dehydrogenase related protein / 0.731
3ajr NADNDP-sugar epimerase / 0.730
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.729
3a4v NADNDP-sugar epimerase / 0.729
3qwf NAP17beta-hydroxysteroid dehydrogenase / 0.728
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.727
3rj9 NADAlcohol dehydrogenase 1.1.1.1 0.727
2ekp NAD2-deoxy-D-gluconate 3-dehydrogenase / 0.726
2z1m NDPGDP-mannose 4,6-dehydratase / 0.726
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.726
5lc1 NADL-threonine 3-dehydrogenase / 0.724
3oa2 NADUDP-N-acetyl-2-amino-2-deoxy-D-glucuronate oxidase / 0.722
4fj0 NAP17beta-hydroxysteroid dehydrogenase / 0.722
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.721
2pk3 A2RGDP-6-deoxy-D-mannose reductase / 0.721
3aut NAIGlucose 1-dehydrogenase 4 1.1.1.47 0.721
4b4o NDPEpimerase family protein SDR39U1 / 0.721
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.720
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.720
3d3w NAPL-xylulose reductase 1.1.1.10 0.719
3ijr NADOxidoreductase, short chain dehydrogenase/reductase family / 0.719
3wmx NADNAD dependent epimerase/dehydratase / 0.719
2yy7 NADL-threonine dehydrogenase / 0.717
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.717
3sx2 NADUncharacterized protein / 0.717
4dmm NAP3-oxoacyl-[acyl-carrier-protein] reductase / 0.717
3f1k NAPUncharacterized oxidoreductase YciK 1 0.716
4qec NAPElxO / 0.716
4tqg NDPPutative dTDP-d-glucose 4 6-dehydratase / 0.716
1edo NAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic 1.1.1.100 0.715
4bqp NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.714
2q2v NADBeta-D-hydroxybutyrate dehydrogenase / 0.713
2yut NAPPutative short-chain oxidoreductase / 0.713
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.711
4o1m NADEnoyl-acyl carrier reductase / 0.711
4pvd NDPNADPH-dependent methylglyoxal reductase GRE2 / 0.711
2y99 NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase 1.3.1.56 0.710
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.710
4id9 NADPutative UDP-glucose 4-epimerase / 0.710
3bmo NAPPteridine reductase / 0.709
4kwh NAPReductase homolog / 0.709
2hrb NAPCarbonyl reductase [NADPH] 3 1.1.1.184 0.708
5bt9 NAP3-oxoacyl-(Acyl-carrier-protein) reductase / 0.708
3orf NADDihydropteridine reductase 1.5.1.34 0.707
4fj1 NAP17beta-hydroxysteroid dehydrogenase / 0.707
3rku NAPNADP-dependent 3-hydroxy acid dehydrogenase / 0.706
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.706
3o26 NDPSalutaridine reductase / 0.705
3o9z NADLipopolysaccaride biosynthesis protein wbpB / 0.705
1t2a NDPGDP-mannose 4,6 dehydratase 4.2.1.47 0.703
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.703
2ztl NADD(-)-3-hydroxybutyrate dehydrogenase / 0.702
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.702
1u7t NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.701
1zh8 NAPUncharacterized protein / 0.701
2z95 NDPGDP-mannose 4,6-dehydratase / 0.701
4j7x NAPSepiapterin reductase 1.1.1.153 0.700
3sju NDPKeto reductase / 0.699
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.698
4b8w NAPGDP-L-fucose synthase 1.1.1.271 0.698
4cql NADEstradiol 17-beta-dehydrogenase 8 1.1.1.62 0.698
4j7u NAPSepiapterin reductase 1.1.1.153 0.698
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.696
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.696
1ae1 NAPTropinone reductase 1 / 0.695
4qed NAPElxO / 0.695
1b14 NADAlcohol dehydrogenase 1.1.1.1 0.694
1x7g NAPPutative ketoacyl reductase 1.3.1 0.694
2bfo NDPPteridine reductase 1 1.5.1.33 0.694
4bii NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.694
1fxs NAPGDP-L-fucose synthase / 0.692
1b16 NAQAlcohol dehydrogenase 1.1.1.1 0.691
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.691
3q2k NAIProbable oxidoreductase / 0.688
4clo NAPPteridine reductase / 0.688
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.687
2z6u SAHModification methylase HhaI 2.1.1.37 0.687
1bws NDPGDP-L-fucose synthase / 0.686
1kc1 NDPdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.686
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.686
1b2l NDCAlcohol dehydrogenase 1.1.1.1 0.685
3p19 NDPPutative blue fluorescent protein / 0.685
4iqg NAPShort-chain dehydrogenase/reductase SDR / 0.685
1u7t TDT3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.684
3rue NADUDP-N-acetylglucosamine 4-epimerase / 0.684
3ak4 NADNADH-dependent quinuclidinone reductase / 0.683
3v8v SAMRibosomal RNA large subunit methyltransferase K/L 2.1.1.173 0.683
1b15 NAEAlcohol dehydrogenase 1.1.1.1 0.681
1x7h NDPPutative ketoacyl reductase 1.3.1 0.681
5jyd NADShort chain dehydrogenase / 0.681
3rfx NADUronate dehydrogenase / 0.680
3tm4 SAMUncharacterized protein / 0.680
3uxy NADShort-chain dehydrogenase/reductase SDR / 0.680
2ydx NAPMethionine adenosyltransferase 2 subunit beta / 0.679
1mg5 NAIAlcohol dehydrogenase 1.1.1.1 0.678
2rbe NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.678
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.678
2nv6 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.677
3gy0 NAPNAD(P)-dependent oxidoreductase / 0.677
4imp NDPPolyketide synthase extender modules 3-4 / 0.676
3qow SAMHistone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.675
3h4v NAPPteridine reductase 1 1.5.1.33 0.674
2bgl NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.673
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.673
3ai2 NDPNADPH-sorbose reductase / 0.673
1fk8 NAD3-alpha-hydroxysteroid dehydrogenase/carbonyl reductase 1.1.1.50 0.672
2i9k SAHModification methylase HhaI 2.1.1.37 0.672
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.672
1enz NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.671
1sby NADAlcohol dehydrogenase 1.1.1.1 0.671
3a28 NADL-2,3-butanediol dehydrogenase 1.1.1.76 0.671
1g0n NDPTetrahydroxynaphthalene reductase 1.1.1.252 0.670
1qyv NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.670
3ec7 NADInositol 2-dehydrogenase / 0.670
3geg NADShort-chain dehydrogenase/reductase SDR / 0.670
3vdq NAD3-hydroxybutyrate dehydrogenase / 0.670
4plp NADHomospermidine synthase 2.5.1.44 0.669
4yv2 S4MSpermidine synthase, putative / 0.669
1p1i NADInositol-3-phosphate synthase 5.5.1.4 0.668
2idz ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.668
2uyh SAHModification methylase HhaI 2.1.1.37 0.668
4nbw NADShort-chain dehydrogenase/reductase SDR / 0.668
5b1y NDP3-oxoacyl-[acyl-carrier-protein] reductase / 0.668
5cpb NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.668
1p44 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.667
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.667
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.667
4yag NAIC alpha-dehydrogenase / 0.667
1ipe NDPTropinone reductase 2 1.1.1.236 0.666
2ag5 NAD3-hydroxybutyrate dehydrogenase type 2 / 0.666
2x0i NAIMalate dehydrogenase / 0.666
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.666
4i1i NADMalate dehydrogenase / 0.666
5jla NADPutative short-chain dehydrogenase/reductase / 0.666
4m87 NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.665
2b35 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.664
1d2h SAHGlycine N-methyltransferase 2.1.1.20 0.663
1eny NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.663
1ie3 NADMalate dehydrogenase / 0.663
1zmc NADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.663
2eer NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.663
3iup NDPPossible NADH oxidoreductase / 0.663
4oxy NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.663
5a03 NDPGlucose-fructose oxidoreductase / 0.663
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.662
2p35 SAHTrans-aconitate 2-methyltransferase / 0.662
3uic NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.662
4l4x NDPAmphI / 0.662
5a05 NDPGlucose-fructose oxidoreductase / 0.662
1w4z NAPPutative ketoacyl reductase 1.3.1 0.661
3of2 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.661
4eue NAITrans-2-enoyl-CoA reductase [NADH] / 0.661
1xcb NADRedox-sensing transcriptional repressor Rex / 0.660
3w8e NAD3-hydroxybutyrate dehydrogenase / 0.660
2bd0 NAPSepiapterin reductase / 0.659
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.659
4dbz NDPPutative ketoacyl reductase 1.3.1 0.659
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.659
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.658
1y8q ATPSUMO-activating enzyme subunit 2 6.3.2 0.657
3ldg SAHUncharacterized protein / 0.657
4xrg NADHomospermidine synthase 2.5.1.44 0.657
1enp NADEnoyl-[acyl-carrier-protein] reductase [NADH], chloroplastic 1.3.1.9 0.656
2o06 MTASpermidine synthase 2.5.1.16 0.656
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.656
1ek5 NADUDP-glucose 4-epimerase / 0.655
2c31 ADPOxalyl-CoA decarboxylase 4.1.1.8 0.655
2ieb ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.655
3ai3 NDPNADPH-sorbose reductase / 0.655
4hbg NDP3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.655
3jyq NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.653
3sr4 TT8Histone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.653
4zju NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.653
5e72 SAMN2, N2-dimethylguanosine tRNA methyltransferase / 0.653
7mht SAHModification methylase HhaI 2.1.1.37 0.653
2q2q NADBeta-D-hydroxybutyrate dehydrogenase / 0.652
3oew NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.652
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.652
5jy1 NADPutative short-chain dehydrogenase/reductase / 0.652
1p1c SAHGuanidinoacetate N-methyltransferase 2.1.1.2 0.651
1z6l FADPolyamine oxidase FMS1 / 0.651
2qe6 SAMUncharacterized protein / 0.651
4dti NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.651