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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
2i9p NAD 3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 1.065
1wp4 NDP3-hydroxyisobutyrate dehydrogenase / 0.804
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.794
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.793
3keq NADRedox-sensing transcriptional repressor Rex / 0.788
3q3c NADNAD-dependent L-serine dehydrogenase / 0.786
3cea NADMyo-inositol 2-dehydrogenase-like (Promiscuous) / 0.764
3f3s NADLambda-crystallin homolog / 0.747
3w6u NAP6-phosphogluconate dehydrogenase, NAD-binding protein / 0.743
3ras NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.742
1agn NADAlcohol dehydrogenase class 4 mu/sigma chain 1.1.1.1 0.728
4xr9 NADCalS8 / 0.725
3anm NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.721
3adp NAILambda-crystallin 1.1.1.45 0.719
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.711
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.711
4kug NAD3-hydroxybutyryl-CoA dehydrogenase / 0.711
3q2k NAIProbable oxidoreductase / 0.710
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.703
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.700
4om8 NAD3-hydroxybutyryl-coA dehydrogenase / 0.700
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.699
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.698
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.697
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.696
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.696
1znq NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.696
2g5c NADPrephenate dehydrogenase / 0.696
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.695
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.693
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.692
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.691
1x7d NADPutative ornithine cyclodeaminase / 0.690
1yb5 NAPQuinone oxidoreductase 1.6.5.5 0.690
2jcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.690
5ees NAP4-hydroxy-tetrahydrodipicolinate reductase / 0.690
3keo NADRedox-sensing transcriptional repressor Rex / 0.689
1dc6 NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.688
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.687
1a7k NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.686
3ikt NADRedox-sensing transcriptional repressor Rex / 0.686
1lsj NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.685
2iyp NAP6-phosphogluconate dehydrogenase, decarboxylating 1.1.1.44 0.684
2qg4 NADUDP-glucose 6-dehydrogenase 1.1.1.22 0.684
4kwh NAPReductase homolog / 0.684
2cvz NDP3-hydroxyisobutyrate dehydrogenase / 0.683
3ggo NAIPrephenate dehydrogenase / 0.683
4is3 NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 2 1.17.98.1 0.683
3m2t NADProbable dehydrogenase / 0.682
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.682
3ing NDPHomoserine dehydrogenase related protein / 0.681
3ket NADRedox-sensing transcriptional repressor Rex / 0.681
1u7h NADPutative ornithine cyclodeaminase / 0.680
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.680
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.680
5ein NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.680
4ebf NADPhosphonate dehydrogenase 1.20.1.1 0.679
4xgi NADGlutamate dehydrogenase / 0.679
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.678
4z3d NDPCarbonyl reductase [NADPH] 1 1.1.1.184 0.678
2ahr NAPPyrroline-5-carboxylate reductase / 0.677
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.677
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.676
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.675
3ggg NADPrephenate dehydrogenase / 0.675
3hwr NDP2-dehydropantoate 2-reductase / 0.674
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.673
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.673
3uko NADAlcohol dehydrogenase class-3 / 0.673
3nug NADPyridoxal 4-dehydrogenase 1.1.1.107 0.672
4y0k NAPAntE / 0.672
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.671
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.670
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.670
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.670
1i36 NAPConserved protein / 0.669
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.668
5bsg NAPPyrroline-5-carboxylate reductase / 0.668
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.667
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.667
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.666
3abi NADUncharacterized protein / 0.666
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.666
3tqh NDPQuinone oxidoreductase / 0.666
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.665
4dl9 NADS-(hydroxymethyl)glutathione dehydrogenase / 0.665
1j49 NADD-lactate dehydrogenase 1.1.1.28 0.664
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.664
3cin NADMyo-inositol-1-phosphate synthase-related protein / 0.664
5lc1 NADL-threonine 3-dehydrogenase / 0.664
1uxk NADMalate dehydrogenase / 0.663
1yjq NAP2-dehydropantoate 2-reductase 1.1.1.169 0.663
3ulk NDPKetol-acid reductoisomerase (NADP(+)) / 0.663
4l0q NADAlcohol dehydrogenase class-3 / 0.663
1o6z NADMalate dehydrogenase / 0.662
2o4c NADErythronate-4-phosphate dehydrogenase / 0.662
3anl NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.662
3e5r NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.662
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.661
2czc NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.59 0.661
2hdh NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.661
3oet NADErythronate-4-phosphate dehydrogenase / 0.661
4dpl NAPMalonyl-CoA reductase 1.2.1.75 0.661
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.661
1nfr NAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase 1.1.1.53 0.660
1pzh NADLactate dehydrogenase / 0.660
2ph5 NADHomospermidine synthase / 0.660
2pv7 NADT-protein 1.3.1.12 0.659
3t4e NADQuinate/shikimate dehydrogenase / 0.659
3wds NADNADH-dependent quinuclidinone reductase / 0.659
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.659
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.658
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.658
4rf2 NAPNADPH dependent R-specific alcohol dehydrogenase / 0.658
2yut NAPPutative short-chain oxidoreductase / 0.657
1sby NADAlcohol dehydrogenase 1.1.1.1 0.656
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.656
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.656
2jhf NADAlcohol dehydrogenase E chain 1.1.1.1 0.656
3zcx NADGlyceraldehyde-3-phosphate dehydrogenase / 0.656
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.656
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.656
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.655
2rcy NAPPyrroline-5-carboxylate reductase / 0.655
3ak4 NADNADH-dependent quinuclidinone reductase / 0.655
3qvx NADMyo-inositol-1-phosphate synthase (Ino1) / 0.655
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.655
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.654
2ldb NADL-lactate dehydrogenase 1.1.1.27 0.653
3gvi ADPMalate dehydrogenase / 0.653
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.653
1bw9 NADPhenylalanine dehydrogenase / 0.652
3a28 NADL-2,3-butanediol dehydrogenase 1.1.1.76 0.652
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.652
1x7h NDPPutative ketoacyl reductase 1.3.1 0.651
4aic NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.651
1gae NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.650
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.650
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.650
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.650