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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
2ggs NDP dTDP-4-dehydrorhamnose reductase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
2ggs NDPdTDP-4-dehydrorhamnose reductase / 1.354
3bmo NAPPteridine reductase / 0.867
5bt9 NAP3-oxoacyl-(Acyl-carrier-protein) reductase / 0.855
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.829
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.817
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.813
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.813
1t2a NDPGDP-mannose 4,6 dehydratase 4.2.1.47 0.809
2ydx NAPMethionine adenosyltransferase 2 subunit beta / 0.802
1w73 NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.798
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.795
4clo NAPPteridine reductase / 0.795
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.794
4j7x NAPSepiapterin reductase 1.1.1.153 0.789
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.787
4hwk NAPSepiapterin reductase 1.1.1.153 0.786
3d3w NAPL-xylulose reductase 1.1.1.10 0.783
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.775
2bfo NDPPteridine reductase 1 1.5.1.33 0.774
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.772
1rpn NDPGDP-mannose 4,6-dehydratase / 0.771
1edo NAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic 1.1.1.100 0.769
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.769
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.769
1pr9 NAPL-xylulose reductase 1.1.1.10 0.768
3gy0 NAPNAD(P)-dependent oxidoreductase / 0.767
2pk3 A2RGDP-6-deoxy-D-mannose reductase / 0.765
3uce NDPDehydrogenase / 0.764
3mje NDPAmphB / 0.763
3aw9 NADNAD-dependent epimerase/dehydratase / 0.761
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.760
5jyd NADShort chain dehydrogenase / 0.760
4hxy NDPPlm1 / 0.758
4u7w NDPMxaA / 0.758
3g49 NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.757
2z1m NDPGDP-mannose 4,6-dehydratase / 0.751
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.749
2z95 NDPGDP-mannose 4,6-dehydratase / 0.747
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.744
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.743
3sju NDPKeto reductase / 0.743
1g1a NADdTDP-glucose 4,6-dehydratase / 0.741
2p5y NADUDP-glucose 4-epimerase / 0.741
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.741
2yut NAPPutative short-chain oxidoreductase / 0.741
3ijr NADOxidoreductase, short chain dehydrogenase/reductase family / 0.740
1rwb NADGlucose 1-dehydrogenase 1.1.1.47 0.739
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.738
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.737
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.735
3tsc NADUncharacterized protein / 0.735
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.733
1bxk NADdTDP-glucose 4,6-dehydratase 2 / 0.732
4kwh NAPReductase homolog / 0.732
2q2v NADBeta-D-hydroxybutyrate dehydrogenase / 0.730
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.730
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.730
1mg5 NAIAlcohol dehydrogenase 1.1.1.1 0.729
2yy7 NADL-threonine dehydrogenase / 0.728
4e5y NDPGDP-L-fucose synthase 1.1.1.271 0.728
2x6t NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.726
1sny NAPLD36273p / 0.725
3o26 NDPSalutaridine reductase / 0.725
1oaa NAPSepiapterin reductase 1.1.1.153 0.723
1cyd NDPCarbonyl reductase [NADPH] 2 1.1.1.184 0.722
3h4v NAPPteridine reductase 1 1.5.1.33 0.722
4idg NADPutative UDP-glucose 4-epimerase / 0.722
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.721
1orr NADCDP-paratose 2-epimerase / 0.720
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.720
3rku NAPNADP-dependent 3-hydroxy acid dehydrogenase / 0.720
2o23 NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.719
3p19 NDPPutative blue fluorescent protein / 0.719
4id9 NADPutative UDP-glucose 4-epimerase / 0.719
3s55 NADPutative short-chain dehydrogenase/reductase / 0.718
2wsb NADGalactitol dehydrogenase / 0.717
2x86 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.716
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.716
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.716
3r3s NADPutative oxidoreductase / 0.716
4fj2 NAP17beta-hydroxysteroid dehydrogenase / 0.716
3sx2 NADUncharacterized protein / 0.715
3wmx NADNAD dependent epimerase/dehydratase / 0.714
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.713
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.713
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.712
2c29 NAPDihydroflavonol 4-reductase / 0.711
2jah NDPClavaldehyde dehydrogenase / 0.711
1e3w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.710
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.710
3tox NAPPutative oxidoreductase / 0.710
3icp NADNAD-dependent epimerase/dehydratase / 0.709
1kc1 NDPdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.707
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.707
5d2e NAPMlnE / 0.707
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.707
2ekp NAD2-deoxy-D-gluconate 3-dehydrogenase / 0.705
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.704
2bd0 NAPSepiapterin reductase / 0.703
2pzj NADPutative nucleotide sugar epimerase/ dehydratase / 0.703
4dbz NDPPutative ketoacyl reductase 1.3.1 0.703
1xq6 NAPUncharacterized protein At5g02240 / 0.702
4tqg NDPPutative dTDP-d-glucose 4 6-dehydratase / 0.702
1g6k NADGlucose 1-dehydrogenase 1.1.1.47 0.701
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.701
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.701
1e3s NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.700
3bhi NAPCarbonyl reductase [NADPH] 1 1.1.1.184 0.700
5lc1 NADL-threonine 3-dehydrogenase / 0.700
1b16 NAQAlcohol dehydrogenase 1.1.1.1 0.699
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.698
3uxy NADShort-chain dehydrogenase/reductase SDR / 0.698
4z3d NDPCarbonyl reductase [NADPH] 1 1.1.1.184 0.698
3ko8 NADNAD-dependent epimerase/dehydratase / 0.697
4fj0 NAP17beta-hydroxysteroid dehydrogenase / 0.697
1zem NADXylitol dehydrogenase / 0.695
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.695
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.695
4b79 NADProbable short-chain dehydrogenase / 0.695
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.694
2ztl NADD(-)-3-hydroxybutyrate dehydrogenase / 0.693
1q0q NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.692
1vl8 NAPOxidoreductase, short chain dehydrogenase/reductase family / 0.691
3l77 NJPShort-chain alcohol dehydrogenase / 0.691
2hrb NAPCarbonyl reductase [NADPH] 3 1.1.1.184 0.690
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.689
3rue NADUDP-N-acetylglucosamine 4-epimerase / 0.689
3tri NAPPyrroline-5-carboxylate reductase / 0.689
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.689
4j7u NAPSepiapterin reductase 1.1.1.153 0.689
4b8w NAPGDP-L-fucose synthase 1.1.1.271 0.688
1sby NADAlcohol dehydrogenase 1.1.1.1 0.687
3a28 NADL-2,3-butanediol dehydrogenase 1.1.1.76 0.687
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.687
1h5q NAPNADP-dependent mannitol dehydrogenase 1.1.1.138 0.686
4bmv NAPShort-chain dehydrogenase / 0.686
5bsg NAPPyrroline-5-carboxylate reductase / 0.685
1i3l NADUDP-glucose 4-epimerase / 0.684
5b1y NDP3-oxoacyl-[acyl-carrier-protein] reductase / 0.684
2b37 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.683
4iqg NAPShort-chain dehydrogenase/reductase SDR / 0.683
1ae1 NAPTropinone reductase 1 / 0.682
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.682
2jcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.682
2ag5 NAD3-hydroxybutyrate dehydrogenase type 2 / 0.681
4rf2 NAPNADPH dependent R-specific alcohol dehydrogenase / 0.681
1x7h NDPPutative ketoacyl reductase 1.3.1 0.679
3o4r NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.679
3tn7 NJPShort-chain alcohol dehydrogenase / 0.679
1bsv NDPGDP-L-fucose synthase / 0.678
1g0n NDPTetrahydroxynaphthalene reductase 1.1.1.252 0.678
2c20 NADUDP-glucose 4-epimerase / 0.678
1bws NDPGDP-L-fucose synthase / 0.677
3ak4 NADNADH-dependent quinuclidinone reductase / 0.676
5idw NAPShort-chain dehydrogenase/reductase SDR / 0.676
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.675
4l4x NDPAmphI / 0.675
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.674
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.674
2zgy GDPPlasmid segregation protein ParM / 0.674
3a4v NADNDP-sugar epimerase / 0.674
3i6q NDPPutative leucoanthocyanidin reductase 1 / 0.674
3orf NADDihydropteridine reductase 1.5.1.34 0.674
3qwf NAP17beta-hydroxysteroid dehydrogenase / 0.674
5aq1 NDPGlucose-6-phosphate 1-dehydrogenase / 0.674
3w6u NAP6-phosphogluconate dehydrogenase, NAD-binding protein / 0.673
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.673
2aqh NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.672
3wbf NAPMeso-diaminopimelate D-dehydrogenase / 0.672
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.672
4hbg NDP3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.672
1e7q NAPGDP-L-fucose synthase / 0.671
4cql NADEstradiol 17-beta-dehydrogenase 8 1.1.1.62 0.671
2nv6 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.670
3rj9 NADAlcohol dehydrogenase 1.1.1.1 0.670
3wds NADNADH-dependent quinuclidinone reductase / 0.670
1nah NADUDP-glucose 4-epimerase 5.1.3.2 0.669
2y99 NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase 1.3.1.56 0.669
3o03 NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) / 0.669
1fxs NAPGDP-L-fucose synthase / 0.668
3w8e NAD3-hydroxybutyrate dehydrogenase / 0.668
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.668
4fj1 NAP17beta-hydroxysteroid dehydrogenase / 0.668
4gae NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.668
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.667
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.667
4i5e NAPAlclohol dehydrogenase/short-chain dehydrogenase / 0.667
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.667
1wvg APRCDP-glucose 4,6-dehydratase 4.2.1.45 0.665
3u4c NDPNADPH-dependent reductase BacG / 0.665
1o9b NAIQuinate/shikimate dehydrogenase / 0.664
2wdz NADGalactitol dehydrogenase / 0.664
3wfj NAD2-dehydropantoate 2-reductase / 0.664
4cr8 NADN-acylmannosamine 1-dehydrogenase 1.1.1.233 0.664
4fn4 NADShort chain dehydrogenase / 0.664
3oa2 NADUDP-N-acetyl-2-amino-2-deoxy-D-glucuronate oxidase / 0.663
4imp NDPPolyketide synthase extender modules 3-4 / 0.663
4pvd NDPNADPH-dependent methylglyoxal reductase GRE2 / 0.663
4qed NAPElxO / 0.663
4b4o NDPEpimerase family protein SDR39U1 / 0.662
1dhr NADDihydropteridine reductase 1.5.1.34 0.661
1w4z NAPPutative ketoacyl reductase 1.3.1 0.661
1w8d NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.661
2ieb ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.661
3oey NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.661
4oxy NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.661
5jy1 NADPutative short-chain dehydrogenase/reductase / 0.661
1p44 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.660
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.660
4aic NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.660
4m55 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.660
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.659
3iup NDPPossible NADH oxidoreductase / 0.659
4yr9 NADL-threonine 3-dehydrogenase, mitochondrial 1.1.1.103 0.659
2qw8 NAPEugenol synthase 1 1.1.1.318 0.658
5a03 NDPGlucose-fructose oxidoreductase / 0.658
4bv9 NDPKetimine reductase mu-crystallin 1.5.1.25 0.657
2b69 NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.656
4eue NAITrans-2-enoyl-CoA reductase [NADH] / 0.654
2aq8 NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.653
2aqi NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.653
2yw9 NAPEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.653
1kev NDPNADP-dependent isopropanol dehydrogenase 1.1.1.80 0.652
4fc7 NAPPeroxisomal 2,4-dienoyl-CoA reductase 1.3.1.34 0.652
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.652
5a06 NDPGlucose-fructose oxidoreductase / 0.652
5cpb NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.652
1h6a NDPGlucose--fructose oxidoreductase 1.1.99.28 0.651
4dti NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.651
1dap NDPMeso-diaminopimelate D-dehydrogenase 1.4.1.16 0.650
1u7t NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.650
2ph5 NADHomospermidine synthase / 0.650
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.650
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.650
5a02 NAPGlucose-fructose oxidoreductase / 0.650
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.650
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.650