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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
3m2t NAD Probable dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3m2t NADProbable dehydrogenase / 1.145
3tri NAPPyrroline-5-carboxylate reductase / 0.769
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.754
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.749
3adp NAILambda-crystallin 1.1.1.45 0.748
3oa2 NADUDP-N-acetyl-2-amino-2-deoxy-D-glucuronate oxidase / 0.744
3ec7 NADInositol 2-dehydrogenase / 0.736
3ikt NADRedox-sensing transcriptional repressor Rex / 0.736
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.733
1zh8 NAPUncharacterized protein / 0.732
1hsz NADAlcohol dehydrogenase 1B 1.1.1.1 0.720
3q2k NAIProbable oxidoreductase / 0.720
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.716
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.713
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.712
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.710
2q3e NAIUDP-glucose 6-dehydrogenase 1.1.1.22 0.705
1h6d NDPGlucose--fructose oxidoreductase 1.1.99.28 0.699
1hdz NADAlcohol dehydrogenase 1B 1.1.1.1 0.697
3jyq NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.697
1ofg NDPGlucose--fructose oxidoreductase 1.1.99.28 0.693
3keo NADRedox-sensing transcriptional repressor Rex / 0.692
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.691
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.691
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.691
3ehe NADUDP-glucose 4-epimerase (GalE-1) / 0.690
1h6c NDPGlucose--fructose oxidoreductase 1.1.99.28 0.689
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.689
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.688
2rcy NAPPyrroline-5-carboxylate reductase / 0.688
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.688
2vhx NADAlanine dehydrogenase 1.4.1.1 0.687
4jk3 NADUncharacterized protein / 0.684
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.684
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 0.682
5a02 NAPGlucose-fructose oxidoreductase / 0.682
5a03 NDPGlucose-fructose oxidoreductase / 0.682
5a04 NDPGlucose-fructose oxidoreductase / 0.682
1h6a NDPGlucose--fructose oxidoreductase 1.1.99.28 0.681
5a05 NDPGlucose-fructose oxidoreductase / 0.681
2e37 NADL-lactate dehydrogenase / 0.680
1ryd NDPGlucose--fructose oxidoreductase 1.1.99.28 0.679
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.679
1h6b NDPGlucose--fructose oxidoreductase 1.1.99.28 0.678
1f8f NADBenzyl alcohol dehydrogenase / 0.677
1uxj NADMalate dehydrogenase / 0.677
1uxk NADMalate dehydrogenase / 0.677
2hdh NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.677
4l8v NAPInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.677
5bsg NAPPyrroline-5-carboxylate reductase / 0.676
1axg NADAlcohol dehydrogenase E chain 1.1.1.1 0.675
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.675
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.674
1evj NADGlucose--fructose oxidoreductase 1.1.99.28 0.673
1f17 NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.673
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.672
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.672
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.672
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.672
4xr9 NADCalS8 / 0.672
3ggp NADPrephenate dehydrogenase / 0.671
3ntr NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.671
4k28 NADShikimate dehydrogenase family protein / 0.671
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.670
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.670
1gae NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.669
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.669
2x0i NAIMalate dehydrogenase / 0.669
1agn NADAlcohol dehydrogenase class 4 mu/sigma chain 1.1.1.1 0.668
3ntq NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.668
4j4b NAIUncharacterized protein / 0.668
3ggo NAIPrephenate dehydrogenase / 0.667
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.667
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.666
2o4c NADErythronate-4-phosphate dehydrogenase / 0.666
1guy NADMalate dehydrogenase / 0.665
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.664
1zmd NAIDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.664
2a92 NAIL-lactate dehydrogenase / 0.664
3bts NADGalactose/lactose metabolism regulatory protein GAL80 / 0.664
3ket NADRedox-sensing transcriptional repressor Rex / 0.664
5bsf NADPyrroline-5-carboxylate reductase / 0.664
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.664
3ing NDPHomoserine dehydrogenase related protein / 0.663
3oet NADErythronate-4-phosphate dehydrogenase / 0.663
5env NADAlcohol dehydrogenase 1 1.1.1.1 0.663
1x7d NADPutative ornithine cyclodeaminase / 0.662
5a06 NDPGlucose-fructose oxidoreductase / 0.662
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.661
1lso NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.660
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.660
2jkv NAP6-phosphogluconate dehydrogenase, decarboxylating 1.1.1.44 0.660
2o23 NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.660
1lsj NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.659
2dfv NADL-threonine 3-dehydrogenase / 0.659
2hjr APRMalate dehydrogenase, adjacent gene encodes predicted lactate dehydrogenase / 0.659
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.659
5eio NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.658
3cin NADMyo-inositol-1-phosphate synthase-related protein / 0.657
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.657
3uko NADAlcohol dehydrogenase class-3 / 0.657
3jyo NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.656
3mj4 FADUDP-galactopyranose mutase / 0.656
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.656
2voj NADAlanine dehydrogenase 1.4.1.1 0.655
3ojl NADCap5O / 0.655
3tnl NADShikimate dehydrogenase (NADP(+)) / 0.655
3ulk NDPKetol-acid reductoisomerase (NADP(+)) / 0.655
4kug NAD3-hydroxybutyryl-CoA dehydrogenase / 0.655
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.655
4xgi NADGlutamate dehydrogenase / 0.655
1b8v NADMalate dehydrogenase / 0.654
1qmg APXKetol-acid reductoisomerase, chloroplastic 1.1.1.86 0.654
3ics ADPCoenzyme A disulfide reductase / 0.654
1c1d NAIPhenylalanine dehydrogenase / 0.652
4z0h NADGlyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12 0.652
2pv7 NADT-protein 1.3.1.12 0.651
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.651
4cr8 NADN-acylmannosamine 1-dehydrogenase 1.1.1.233 0.651
4wec NADShort chain dehydrogenase / 0.651
2gsd NADFormate dehydrogenase / 0.650
2wsb NADGalactitol dehydrogenase / 0.650
3cea NADMyo-inositol 2-dehydrogenase-like (Promiscuous) / 0.650