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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
1wp4 NDP 3-hydroxyisobutyrate dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1wp4 NDP3-hydroxyisobutyrate dehydrogenase / 1.293
2cvz NDP3-hydroxyisobutyrate dehydrogenase / 1.179
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.904
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.868
3q3c NADNAD-dependent L-serine dehydrogenase / 0.816
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 0.804
2f1k NAPPrephenate dehydrogenase / 0.766
5ein NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.761
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.754
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.753
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.753
3a14 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.740
2uyy NA7Putative oxidoreductase GLYR1 1 0.739
3w6u NAP6-phosphogluconate dehydrogenase, NAD-binding protein / 0.739
3f3s NADLambda-crystallin homolog / 0.737
2q3e NAIUDP-glucose 6-dehydrogenase 1.1.1.22 0.736
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.735
3o26 NDPSalutaridine reductase / 0.723
4oqy NDP(S)-imine reductase / 0.723
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.722
4gae NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.722
1hdo NAPFlavin reductase (NADPH) / 0.720
1q0q NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.719
3ing NDPHomoserine dehydrogenase related protein / 0.719
3ikt NADRedox-sensing transcriptional repressor Rex / 0.718
3ras NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.718
3abi NADUncharacterized protein / 0.717
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.717
3zhb NAPPutative dehydrogenase / 0.716
4xgi NADGlutamate dehydrogenase / 0.715
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.713
3keo NADRedox-sensing transcriptional repressor Rex / 0.712
1i36 NAPConserved protein / 0.710
2hrb NAPCarbonyl reductase [NADPH] 3 1.1.1.184 0.709
4dpl NAPMalonyl-CoA reductase 1.2.1.75 0.709
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.707
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.704
1c1d NAIPhenylalanine dehydrogenase / 0.703
3anm NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.702
3au8 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.701
3cea NADMyo-inositol 2-dehydrogenase-like (Promiscuous) / 0.700
1zh8 NAPUncharacterized protein / 0.698
1yjq NAP2-dehydropantoate 2-reductase 1.1.1.169 0.697
3tri NAPPyrroline-5-carboxylate reductase / 0.697
2jkv NAP6-phosphogluconate dehydrogenase, decarboxylating 1.1.1.44 0.696
3ggp NADPrephenate dehydrogenase / 0.693
5idw NAPShort-chain dehydrogenase/reductase SDR / 0.693
1h6d NDPGlucose--fructose oxidoreductase 1.1.99.28 0.692
2rcy NAPPyrroline-5-carboxylate reductase / 0.691
3anl NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.691
4ywj NAD4-hydroxy-tetrahydrodipicolinate reductase / 0.689
4z0p NDPNAD-dependent dehydrogenase / 0.689
5eio NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.689
3hwr NDP2-dehydropantoate 2-reductase / 0.688
2jcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.685
2czc NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.59 0.682
3mvq NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.682
3ngl NAPBifunctional protein FolD / 0.682
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.681
3h2s NDPPutative NADH-flavin reductase / 0.681
4xqc NADHomospermidine synthase 2.5.1.44 0.681
4xrg NADHomospermidine synthase 2.5.1.44 0.681
2yy7 NADL-threonine dehydrogenase / 0.680
3bhi NAPCarbonyl reductase [NADPH] 1 1.1.1.184 0.679
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.677
2vq3 NAPMetalloreductase STEAP3 / 0.677
4aic NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.677
4hp8 NAP2-deoxy-D-gluconate 3-dehydrogenase / 0.676
4jbi NDPAlcohol dehydrogenase (Zinc) / 0.676
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.675
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.674
2yyy NAPGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.59 0.674
3keq NADRedox-sensing transcriptional repressor Rex / 0.673
3tn7 NJPShort-chain alcohol dehydrogenase / 0.673
5a02 NAPGlucose-fructose oxidoreductase / 0.672
1ryd NDPGlucose--fructose oxidoreductase 1.1.99.28 0.671
3adp NAILambda-crystallin 1.1.1.45 0.671
2hk9 NAPShikimate dehydrogenase (NADP(+)) / 0.670
4om8 NAD3-hydroxybutyryl-coA dehydrogenase / 0.670
2i3g NAPN-acetyl-gamma-glutamyl-phosphate reductase 1.2.1.38 0.669
4kug NAD3-hydroxybutyryl-CoA dehydrogenase / 0.669
1vi2 NADQuinate/shikimate dehydrogenase / 0.667
2x0i NAIMalate dehydrogenase / 0.667
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.667
4xyb NDPFormate dehydrogenase / 0.667
5lc1 NADL-threonine 3-dehydrogenase / 0.667
1jn0 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.666
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.666
4rf2 NAPNADPH dependent R-specific alcohol dehydrogenase / 0.666
5a9s NAPPutative dehydrogenase / 0.664
2c29 NAPDihydroflavonol 4-reductase / 0.663
2cy0 NAPShikimate dehydrogenase (NADP(+)) / 0.663
4tqg NDPPutative dTDP-d-glucose 4 6-dehydratase / 0.662
1iy8 NADLevodione reductase / 0.661
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.661
1qxs NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.660
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.660
1cf2 NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.659
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.658
5ijz NAPNADP-specific glutamate dehydrogenase 1.4.1.4 0.658
1h6a NDPGlucose--fructose oxidoreductase 1.1.99.28 0.657
2xlt NA0Putative flavin-containing monooxygenase / 0.657
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.657
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.656
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.656
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.655
2hdh NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.655
2y05 NAPProstaglandin reductase 1 / 0.655
5bsg NAPPyrroline-5-carboxylate reductase / 0.655
3kbo NDPGlyoxylate/hydroxypyruvate reductase A / 0.654
2ev9 NAPShikimate dehydrogenase (NADP(+)) / 0.653
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.653
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.653
1yqd NAPSinapyl alcohol dehydrogenase / 0.652
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.652
3q2k NAIProbable oxidoreductase / 0.652
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.652
5dul NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.652
1t2a NDPGDP-mannose 4,6 dehydratase 4.2.1.47 0.651
2ahr NAPPyrroline-5-carboxylate reductase / 0.651
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.651
3two NDPMannitol dehydrogenase / 0.650
4pvd NDPNADPH-dependent methylglyoxal reductase GRE2 / 0.650
4ros APRMalate dehydrogenase / 0.650
4xb1 NDP319aa long hypothetical homoserine dehydrogenase / 0.650