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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
3geg NAD Short-chain dehydrogenase/reductase SDR

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
3geg NADShort-chain dehydrogenase/reductase SDR / 1.209
4fn4 NADShort chain dehydrogenase / 0.924
4yai NAIC alpha-dehydrogenase / 0.902
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.889
4yag NAIC alpha-dehydrogenase / 0.881
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.875
1bdb NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase / 0.866
3qrw NDPPutative ketoacyl reductase 1.3.1 0.865
4rf2 NAPNADPH dependent R-specific alcohol dehydrogenase / 0.863
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.859
3tsc NADUncharacterized protein / 0.859
1x7h NDPPutative ketoacyl reductase 1.3.1 0.858
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.852
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.849
1ipe NDPTropinone reductase 2 1.1.1.236 0.848
2gdz NAD15-hydroxyprostaglandin dehydrogenase [NAD(+)] 1.1.1.141 0.847
3wds NADNADH-dependent quinuclidinone reductase / 0.845
3o26 NDPSalutaridine reductase / 0.843
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.842
3vdq NAD3-hydroxybutyrate dehydrogenase / 0.833
4kwh NAPReductase homolog / 0.831
4z3d NDPCarbonyl reductase [NADPH] 1 1.1.1.184 0.831
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.829
2q2v NADBeta-D-hydroxybutyrate dehydrogenase / 0.826
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.822
2wsb NADGalactitol dehydrogenase / 0.818
1oaa NAPSepiapterin reductase 1.1.1.153 0.816
1edo NAP3-oxoacyl-[acyl-carrier-protein] reductase 1, chloroplastic 1.1.1.100 0.815
2ztl NADD(-)-3-hydroxybutyrate dehydrogenase / 0.815
3a28 NADL-2,3-butanediol dehydrogenase 1.1.1.76 0.813
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.812
3w8e NAD3-hydroxybutyrate dehydrogenase / 0.810
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.805
3sx2 NADUncharacterized protein / 0.804
5jla NADPutative short-chain dehydrogenase/reductase / 0.804
1cyd NDPCarbonyl reductase [NADPH] 2 1.1.1.184 0.803
3ak4 NADNADH-dependent quinuclidinone reductase / 0.802
1e3s NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.798
3iah NAPPutative oxoacyl-(Acyl carrier protein) reductase / 0.798
3s55 NADPutative short-chain dehydrogenase/reductase / 0.798
4dbz NDPPutative ketoacyl reductase 1.3.1 0.797
1x7g NAPPutative ketoacyl reductase 1.3.1 0.795
2ztm NADD(-)-3-hydroxybutyrate dehydrogenase / 0.794
4iqg NAPShort-chain dehydrogenase/reductase SDR / 0.793
4wec NADShort chain dehydrogenase / 0.793
4b79 NADProbable short-chain dehydrogenase / 0.790
1w4z NAPPutative ketoacyl reductase 1.3.1 0.788
4nbt NAD3-oxoacyl-[acyl-carrier-protein] reductase / 0.786
3d3w NAPL-xylulose reductase 1.1.1.10 0.783
2q2q NADBeta-D-hydroxybutyrate dehydrogenase / 0.782
3tn7 NJPShort-chain alcohol dehydrogenase / 0.782
1xkq NDPUncharacterized protein / 0.781
2wdz NADGalactitol dehydrogenase / 0.779
4j7x NAPSepiapterin reductase 1.1.1.153 0.779
1rwb NADGlucose 1-dehydrogenase 1.1.1.47 0.778
3p19 NDPPutative blue fluorescent protein / 0.778
3qwf NAP17beta-hydroxysteroid dehydrogenase / 0.778
4bmv NAPShort-chain dehydrogenase / 0.778
4hwk NAPSepiapterin reductase 1.1.1.153 0.778
1pr9 NAPL-xylulose reductase 1.1.1.10 0.776
4j7u NAPSepiapterin reductase 1.1.1.153 0.776
1ae1 NAPTropinone reductase 1 / 0.773
1xse NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.772
3rj5 NADAlcohol dehydrogenase 1.1.1.1 0.772
3o4r NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.768
2q1w NADPutative nucleotide sugar epimerase/ dehydratase / 0.767
2bd0 NAPSepiapterin reductase / 0.766
2zat NAPDehydrogenase/reductase SDR family member 4 1.1.1.184 0.765
1mg5 NAIAlcohol dehydrogenase 1.1.1.1 0.763
2ztv NADD(-)-3-hydroxybutyrate dehydrogenase / 0.761
4c7k NAPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.761
2o23 NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.760
1e3w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.758
1ahh NAD7-alpha-hydroxysteroid dehydrogenase 1.1.1.159 0.757
2rbe NDPCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.757
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.756
3r3s NADPutative oxidoreductase / 0.756
4nbu NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.753
4pvd NDPNADPH-dependent methylglyoxal reductase GRE2 / 0.753
5jyd NADShort chain dehydrogenase / 0.752
1h5q NAPNADP-dependent mannitol dehydrogenase 1.1.1.138 0.748
2c29 NAPDihydroflavonol 4-reductase / 0.748
3rj9 NADAlcohol dehydrogenase 1.1.1.1 0.748
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.748
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.747
5idw NAPShort-chain dehydrogenase/reductase SDR / 0.746
2y99 NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase 1.3.1.56 0.745
3ai2 NDPNADPH-sorbose reductase / 0.745
4clo NAPPteridine reductase / 0.745
4fj1 NAP17beta-hydroxysteroid dehydrogenase / 0.744
1nff NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.742
3gy0 NAPNAD(P)-dependent oxidoreductase / 0.742
3rku NAPNADP-dependent 3-hydroxy acid dehydrogenase / 0.742
4yac NAIC alpha-dehydrogenase / 0.742
4fj2 NAP17beta-hydroxysteroid dehydrogenase / 0.741
2wyv NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.740
3ru9 NADUDP-N-acetylglucosamine 4-epimerase / 0.738
2dte NAIGlucose 1-dehydrogenase related protein / 0.737
1vl8 NAPOxidoreductase, short chain dehydrogenase/reductase family / 0.735
4twr NADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase / 0.735
4fj0 NAP17beta-hydroxysteroid dehydrogenase / 0.733
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.731
1nai NADUDP-glucose 4-epimerase 5.1.3.2 0.731
3ruh NADUDP-N-acetylglucosamine 4-epimerase / 0.731
2ztu NADD(-)-3-hydroxybutyrate dehydrogenase / 0.729
1sny NAPLD36273p / 0.727
1e6w NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.723
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.722
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.719
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.716
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.716
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.715
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.714
2p5y NADUDP-glucose 4-epimerase / 0.714
3wmx NADNAD dependent epimerase/dehydratase / 0.714
2jah NDPClavaldehyde dehydrogenase / 0.713
3ruc NADUDP-N-acetylglucosamine 4-epimerase / 0.713
4m87 NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.712
4qec NAPElxO / 0.712
3ndr NADPyridoxal 4-dehydrogenase 1.1.1.107 0.710
3pgx NADUncharacterized NAD-dependent oxidoreductase MAP_4146 / 0.710
4gll NADUDP-glucuronic acid decarboxylase 1 4.1.1.35 0.710
3u4c NDPNADPH-dependent reductase BacG / 0.709
1b15 NAEAlcohol dehydrogenase 1.1.1.1 0.708
2ekp NAD2-deoxy-D-gluconate 3-dehydrogenase / 0.707
5bt9 NAP3-oxoacyl-(Acyl-carrier-protein) reductase / 0.707
1u7t NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.706
4y9d NAIC alpha-dehydrogenase / 0.706
3oew NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.704
2yy7 NADL-threonine dehydrogenase / 0.703
2c54 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.702
4cql NADEstradiol 17-beta-dehydrogenase 8 1.1.1.62 0.702
1sby NADAlcohol dehydrogenase 1.1.1.1 0.700
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.698
4zju NADEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.698
1fdu NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.697
2p5u NADUDP-glucose 4-epimerase / 0.697
4bms NAPAlclohol dehydrogenase/short-chain dehydrogenase / 0.697
2ntj P1HEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.696
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.694
5cpb NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.694
1ek5 NADUDP-glucose 4-epimerase / 0.693
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.693
4oxy NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.691
1wnt NAPL-xylulose reductase 1.1.1.10 0.690
3rua NADUDP-N-acetylglucosamine 4-epimerase / 0.690
3aut NAIGlucose 1-dehydrogenase 4 1.1.1.47 0.689
1eny NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.688
2nv6 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.687
3ko8 NADNAD-dependent epimerase/dehydratase / 0.687
1w73 NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.686
3ruf NADUDP-N-acetylglucosamine 4-epimerase / 0.686
2ewm NAD(S)-1-Phenylethanol dehydrogenase 1.1.1.311 0.685
4nbw NADShort-chain dehydrogenase/reductase SDR / 0.685
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.684
3l77 NJPShort-chain alcohol dehydrogenase / 0.684
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.683
1t2a NDPGDP-mannose 4,6 dehydratase 4.2.1.47 0.683
2h9i EADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.683
4dre NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.683
4qed NAPElxO / 0.683
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.682
1u7t TDT3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.681
2c20 NADUDP-glucose 4-epimerase / 0.681
3of2 NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.681
3uce NDPDehydrogenase / 0.681
1b16 NAQAlcohol dehydrogenase 1.1.1.1 0.680
1fk8 NAD3-alpha-hydroxysteroid dehydrogenase/carbonyl reductase 1.1.1.50 0.680
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.680
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.680
4dti NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.680
1sqf SAMRibosomal RNA small subunit methyltransferase B 2.1.1.176 0.679
1d2h SAHGlycine N-methyltransferase 2.1.1.20 0.678
3bhi NAPCarbonyl reductase [NADPH] 1 1.1.1.184 0.678
5lc1 NADL-threonine 3-dehydrogenase / 0.678
3lqf NADGalactitol dehydrogenase / 0.675
1iy8 NADLevodione reductase / 0.674
3g07 SAM7SK snRNA methylphosphate capping enzyme 2.1.1 0.674
3sj7 NDP3-oxoacyl-(Acyl-carrier-protein) reductase, putative / 0.674
2yr4 FADPhenylalanine 2-monooxygenase precursor 1.13.12.9 0.673
3v8v SAMRibosomal RNA large subunit methyltransferase K/L 2.1.1.173 0.673
4fw8 NAI3-oxoacyl-(Acyl-carrier-protein) reductase / 0.673
4k6f NAPPutative Acetoacetyl-CoA reductase / 0.672
1w8d NAP2,4-dienoyl-CoA reductase, mitochondrial 1.3.1.34 0.671
2ie0 ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.671
3a4v NADNDP-sugar epimerase / 0.671
4dc0 NDPPutative ketoacyl reductase 1.3.1 0.671
1nbi SAMGlycine N-methyltransferase 2.1.1.20 0.670
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.670
4trn NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.670
4u7w NDPMxaA / 0.670
1g6k NADGlucose 1-dehydrogenase 1.1.1.47 0.669
3rud NADUDP-N-acetylglucosamine 4-epimerase / 0.669
1boo SAHModification methylase PvuII 2.1.1.113 0.668
2aq8 NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.668
2z1m NDPGDP-mannose 4,6-dehydratase / 0.668
3aw9 NADNAD-dependent epimerase/dehydratase / 0.668
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.668
4lis NADUDP-glucose 4-epimerase (Eurofung) / 0.668
3oey NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.667
3rue NADUDP-N-acetylglucosamine 4-epimerase / 0.667
1wy7 SAHUncharacterized protein / 0.666
2aqi NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.666
2ieb ZIDEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.666
2pr2 DG1Enoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.666
3ai3 NDPNADPH-sorbose reductase / 0.666
4hbg NDP3-oxoacyl-[acyl-carrier-protein] reductase 1.1.1.100 0.666
4iv8 SAMPhosphoethanolamine N-methyltransferase,putative / 0.666
4bqp NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.665
4dmm NAP3-oxoacyl-[acyl-carrier-protein] reductase / 0.665
4idg NADPutative UDP-glucose 4-epimerase / 0.665
1eq2 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.664
3mje NDPAmphB / 0.664
3mvq NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.664
3sr4 TT8Histone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.664
4j4b NAIUncharacterized protein / 0.664
1sow NADL-lactate dehydrogenase 1.1.1.27 0.663
3qvx NADMyo-inositol-1-phosphate synthase (Ino1) / 0.663
2bgl NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.662
1pzg A3DLactate dehydrogenase / 0.661
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.661
3rfx NADUronate dehydrogenase / 0.661
1b2l NDCAlcohol dehydrogenase 1.1.1.1 0.660
1rkx NADCDP-D-glucose-4,6-dehydratase / 0.660
2jb1 FADL-amino acid oxidase / 0.660
3a9w NADNDP-sugar epimerase / 0.660
3ijr NADOxidoreductase, short chain dehydrogenase/reductase family / 0.660
4rtk SAHDNA adenine methylase 2.1.1.72 0.660
2dkn NAI3-alpha-hydroxysteroid dehydrogenase / 0.659
2nyu SAMrRNA methyltransferase 2, mitochondrial / 0.659
3zu2 NAIEnoyl-[acyl-carrier-protein] reductase [NADH] / 0.659
2x0r NADMalate dehydrogenase / 0.658
3hvi 619Catechol O-methyltransferase 2.1.1.6 0.658
4nec SAHPutative SAM-dependent methyltransferase / 0.658
1v35 NAIEnoyl-ACP reductase / 0.657
2q0l FADThioredoxin reductase 1.8.1.9 0.657
3ajr NADNDP-sugar epimerase / 0.657
3o03 NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase) / 0.657
1qyv NAPEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.656
4mwz SAMPhosphoethanolamine N-methyltransferase, putative / 0.656
5b1y NDP3-oxoacyl-[acyl-carrier-protein] reductase / 0.656
5je3 SAHMethyl transferase / 0.656
1c1d NAIPhenylalanine dehydrogenase / 0.655
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.655
2ag5 NAD3-hydroxybutyrate dehydrogenase type 2 / 0.655
2aqh NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.655
4dqu NAIEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.655
5jdz SAHMethyl transferase / 0.655
1bw9 NADPhenylalanine dehydrogenase / 0.654
1enz NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.654
2z6u SAHModification methylase HhaI 2.1.1.37 0.654
4eue NAITrans-2-enoyl-CoA reductase [NADH] / 0.654
5je2 SAHMethyl transferase / 0.654
5bxy SAHPutative RNA methylase family UPF0020 / 0.652
1l3i SAHProbable cobalt-precorrin-6B C(15)-methyltransferase (decarboxylating) / 0.651
1vrw NAIEnoyl-ACP reductase / 0.651
2q1t NADPutative nucleotide sugar epimerase/ dehydratase / 0.651
3uj7 SAMPhosphoethanolamine N-methyltransferase / 0.651
4fc7 NAPPeroxisomal 2,4-dienoyl-CoA reductase 1.3.1.34 0.651
4fr8 ADPAldehyde dehydrogenase, mitochondrial 1.2.1.3 0.651
4obw SAM2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial / 0.651
4bgi NADEnoyl-[acyl-carrier-protein] reductase [NADH] 1.3.1.9 0.650
4krh SAMPhosphoethanolamine N-methyltransferase 2 / 0.650
4rls NAIL-lactate dehydrogenase A chain 1.1.1.27 0.650