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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
3bmo NAP Pteridine reductase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3bmo NAPPteridine reductase / 1.349
4clo NAPPteridine reductase / 1.156
3h4v NAPPteridine reductase 1 1.5.1.33 1.113
2bfo NDPPteridine reductase 1 1.5.1.33 1.103
5bt9 NAP3-oxoacyl-(Acyl-carrier-protein) reductase / 0.981
2ggs NDPdTDP-4-dehydrorhamnose reductase / 0.867
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.824
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.818
5jyd NADShort chain dehydrogenase / 0.817
1rwb NADGlucose 1-dehydrogenase 1.1.1.47 0.815
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.812
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.803
1w73 NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.794
1w8d NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.782
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.781
4j7x NAPSepiapterin reductase 1.1.1.153 0.781
4kwh NAPReductase homolog / 0.780
3gy0 NAPNAD(P)-dependent oxidoreductase / 0.777
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.767
3icp NADNAD-dependent epimerase/dehydratase / 0.766
3p19 NDPPutative blue fluorescent protein / 0.766
2wdz NADGalactitol dehydrogenase / 0.762
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.762
3d3w NAPL-xylulose reductase 1.1.1.10 0.759
3ai2 NDPNADPH-sorbose reductase / 0.758
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.758
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.756
3a28 NADL-2,3-butanediol dehydrogenase 1.1.1.76 0.756
3o03 NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) / 0.756
4j7u NAPSepiapterin reductase 1.1.1.153 0.756
4rf2 NAPNADPH dependent R-specific alcohol dehydrogenase / 0.756
3ko8 NADNAD-dependent epimerase/dehydratase / 0.755
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.755
2q2v NADBeta-D-hydroxybutyrate dehydrogenase / 0.754
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.753
3qwf NAP17beta-hydroxysteroid dehydrogenase / 0.752
4b79 NADProbable short-chain dehydrogenase / 0.749
1h5q NAPNADP-dependent mannitol dehydrogenase 1.1.1.138 0.747
4dbz NDPPutative ketoacyl reductase 1.3.1 0.747
2p5y NADUDP-glucose 4-epimerase / 0.744
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.744
4hwk NAPSepiapterin reductase 1.1.1.153 0.743
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.742
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.741
1x7g NAPPutative ketoacyl reductase 1.3.1 0.739
2dte NAIGlucose 1-dehydrogenase related protein / 0.738
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.738
2z1m NDPGDP-mannose 4,6-dehydratase / 0.737
4z3d NDPCarbonyl reductase [NADPH] 1 1.1.1.184 0.737
5jy1 NADPutative short-chain dehydrogenase/reductase / 0.737
1edo NAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic 1.1.1.100 0.736
2rbe NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.736
4hxy NDPPlm1 / 0.736
3aw9 NADNAD-dependent epimerase/dehydratase / 0.735
1cyd NDPCarbonyl reductase [NADPH] 2 1.1.1.184 0.733
1zem NADXylitol dehydrogenase / 0.733
3r3s NADPutative oxidoreductase / 0.733
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.732
4fc7 NAPPeroxisomal 2,4-dienoyl-CoA reductase 1.3.1.34 0.732
3ijr NADOxidoreductase, short chain dehydrogenase/reductase family / 0.731
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.731
2ekp NAD2-deoxy-D-gluconate 3-dehydrogenase / 0.730
1pr9 NAPL-xylulose reductase 1.1.1.10 0.729
1x7h NDPPutative ketoacyl reductase 1.3.1 0.729
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.729
4fj1 NAP17beta-hydroxysteroid dehydrogenase / 0.729
2ztl NADD(-)-3-hydroxybutyrate dehydrogenase / 0.727
4fj2 NAP17beta-hydroxysteroid dehydrogenase / 0.727
3o26 NDPSalutaridine reductase / 0.726
4fj0 NAP17beta-hydroxysteroid dehydrogenase / 0.726
2yut NAPPutative short-chain oxidoreductase / 0.724
5cpb NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.724
1ae1 NAPTropinone reductase 1 / 0.722
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.722
1oaa NAPSepiapterin reductase 1.1.1.153 0.721
2hrb NAPCarbonyl reductase [NADPH] 3 1.1.1.184 0.721
4zju NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.720
1g0n NDPTetrahydroxynaphthalene reductase 1.1.1.252 0.719
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.718
4o1m NADEnoyl-acyl carrier reductase / 0.718
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.717
2ztu NADD(-)-3-hydroxybutyrate dehydrogenase / 0.717
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.717
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.717
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.716
1i3l NADUDP-glucose 4-epimerase / 0.715
2ydx NAPMethionine adenosyltransferase 2 subunit beta / 0.715
3g49 NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.714
5lc1 NADL-threonine 3-dehydrogenase / 0.714
1vl8 NAPOxidoreductase, short chain dehydrogenase/reductase family / 0.713
3wds NADNADH-dependent quinuclidinone reductase / 0.712
3tsc NADUncharacterized protein / 0.710
3w8e NAD3-hydroxybutyrate dehydrogenase / 0.710
1rpn NDPGDP-mannose 4,6-dehydratase / 0.709
2pk3 A2RGDP-6-deoxy-D-mannose reductase / 0.709
3o4r NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.709
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.709
1xkq NDPUncharacterized protein / 0.708
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.707
3vdq NAD3-hydroxybutyrate dehydrogenase / 0.707
1p44 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.705
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.705
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.705
1kc1 NDPdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.704
4idg NADPutative UDP-glucose 4-epimerase / 0.704
4e5y NDPGDP-L-fucose synthase 1.1.1.271 0.703
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.701
3bhi NAPCarbonyl reductase [NADPH] 1 1.1.1.184 0.701
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.699
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.699
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.699
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.698
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.698
4b8w NAPGDP-L-fucose synthase 1.1.1.271 0.697
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.696
2c29 NAPDihydroflavonol 4-reductase / 0.696
4bmv NAPShort-chain dehydrogenase / 0.696
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.695
4m87 NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.695
4wec NADShort chain dehydrogenase / 0.695
2jah NDPClavaldehyde dehydrogenase / 0.694
1g1a NADdTDP-glucose 4,6-dehydratase / 0.693
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.693
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.693
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.693
2ntj P1HEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.692
2o23 NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.690
2yw9 NAPEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.689
3rku NAPNADP-dependent 3-hydroxy acid dehydrogenase / 0.689
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.689
3u4c NDPNADPH-dependent reductase BacG / 0.688
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.688
1g6k NADGlucose 1-dehydrogenase 1.1.1.47 0.687
3wmx NADNAD dependent epimerase/dehydratase / 0.687
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.685
1e3s NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.684
1sny NAPLD36273p / 0.684
3s55 NADPutative short-chain dehydrogenase/reductase / 0.684
1e6w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.683
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.683
5d2e NAPMlnE / 0.683
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.680
2b4q NAPRhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.679
1fdu NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.677
3rue NADUDP-N-acetylglucosamine 4-epimerase / 0.676
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.675
1bxk NADdTDP-glucose 4,6-dehydratase 2 / 0.674
2qw8 NAPEugenol synthase 1 1.1.1.318 0.674
4dqu NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.674
4yr9 NADL-threonine 3-dehydrogenase, mitochondrial 1.1.1.103 0.674
1ybm NAPUncharacterized protein At5g02240 / 0.673
4trn NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.673
1ipe NDPTropinone reductase 2 1.1.1.236 0.672
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.672
3qrw NDPPutative ketoacyl reductase 1.3.1 0.672
1xq6 NAPUncharacterized protein At5g02240 / 0.671
4tqg NDPPutative dTDP-d-glucose 4 6-dehydratase / 0.671
2yy7 NADL-threonine dehydrogenase / 0.670
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.669
2q2q NADBeta-D-hydroxybutyrate dehydrogenase / 0.668
4iqg NAPShort-chain dehydrogenase/reductase SDR / 0.667
2nv6 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.666
3ak4 NADNADH-dependent quinuclidinone reductase / 0.665
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.664
1dhr NADDihydropteridine reductase 1.5.1.34 0.663
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.663
2rcy NAPPyrroline-5-carboxylate reductase / 0.663
2bd0 NAPSepiapterin reductase / 0.662
2wyv NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.662
4id9 NADPutative UDP-glucose 4-epimerase / 0.662
4zu4 4TGWxcM-like protein / 0.662
3uic NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.661
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.660
3oew NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.660
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.660
4oxy NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.660
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.659
2aqh NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.659
1ahh NAD7-alpha-hydroxysteroid dehydrogenase 1.1.1.159 0.657
2r6j NDPEugenol synthase 1 1.1.1.318 0.657
2zat NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.657
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.655
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.655
5jla NADPutative short-chain dehydrogenase/reductase / 0.655
2p5u NADUDP-glucose 4-epimerase / 0.654
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.653
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.653
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.653
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.653
1hdr NADDihydropteridine reductase 1.5.1.34 0.652
1wvg APRCDP-glucose 4,6-dehydratase 4.2.1.45 0.651
4pvd NDPNADPH-dependent methylglyoxal reductase GRE2 / 0.651
1sby NADAlcohol dehydrogenase 1.1.1.1 0.650
3a4v NADNDP-sugar epimerase / 0.650
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.650