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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
4dl9 NAD S-(hydroxymethyl)glutathione dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4dl9 NADS-(hydroxymethyl)glutathione dehydrogenase / 1.113
3uko NADAlcohol dehydrogenase class-3 / 0.934
4dlb NADS-(hydroxymethyl)glutathione dehydrogenase / 0.918
4l0q NADAlcohol dehydrogenase class-3 / 0.901
4jji NADAlcohol dehydrogenase class-3 / 0.895
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.876
2fzw NADAlcohol dehydrogenase class-3 1.1.1.1 0.860
4gl4 NAIAlcohol dehydrogenase class-3 / 0.840
1ma0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.833
1e3l NADAlcohol dehydrogenase 4 1.1.1.1 0.814
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.811
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.808
1cdo NADAlcohol dehydrogenase 1 1.1.1.1 0.789
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.785
2vhx NADAlanine dehydrogenase 1.4.1.1 0.783
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.779
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.778
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.778
1hsz NADAlcohol dehydrogenase 1B 1.1.1.1 0.774
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.764
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.761
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.760
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.760
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.754
1adb CNDAlcohol dehydrogenase E chain 1.1.1.1 0.748
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.745
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.744
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.739
1qlh NADAlcohol dehydrogenase E chain 1.1.1.1 0.739
4cpd NADAlcohol dehydrogenase / 0.739
1heu NADAlcohol dehydrogenase E chain 1.1.1.1 0.738
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.737
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.732
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.732
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.731
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.731
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.730
2fze APRAlcohol dehydrogenase class-3 1.1.1.1 0.730
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.729
1pjc NADAlanine dehydrogenase / 0.729
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.728
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.727
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.726
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.726
2dph NADFormaldehyde dismutase / 0.724
3oet NADErythronate-4-phosphate dehydrogenase / 0.724
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.723
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.721
1pl8 NADSorbitol dehydrogenase 1.1.1.14 0.720
3ggo NAIPrephenate dehydrogenase / 0.720
2voj NADAlanine dehydrogenase 1.4.1.1 0.719
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.719
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.717
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.717
3ec7 NADInositol 2-dehydrogenase / 0.716
4jnk NAIL-lactate dehydrogenase A chain 1.1.1.27 0.716
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.713
3wsw NADL-lactate dehydrogenase / 0.711
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.711
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.710
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.708
1hdz NADAlcohol dehydrogenase 1B 1.1.1.1 0.707
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.707
2jhf NADAlcohol dehydrogenase E chain 1.1.1.1 0.707
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.707
1lsj NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.706
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.703
2hu2 NADC-terminal binding protein 1 / 0.703
1adc PADAlcohol dehydrogenase E chain 1.1.1.1 0.702
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.702
1uxk NADMalate dehydrogenase / 0.702
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.702
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.701
4wlv NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.701
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.700
1c1d NAIPhenylalanine dehydrogenase / 0.698
1ez4 NADL-lactate dehydrogenase 1.1.1.27 0.698
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.696
4rqu NADAlcohol dehydrogenase class-P / 0.692
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.691
3jyo NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.690
1axg NADAlcohol dehydrogenase E chain 1.1.1.1 0.688
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.688
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.687
1yqd NAPSinapyl alcohol dehydrogenase / 0.685
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.685
4c4o NADSADH / 0.685
1uxj NADMalate dehydrogenase / 0.684
3wle NAD(R)-specific carbonyl reductase / 0.684
1e3e NAIAlcohol dehydrogenase 4 1.1.1.1 0.683
2aa3 AP0L-lactate dehydrogenase / 0.683
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.682
1guy NADMalate dehydrogenase / 0.682
4ejm NAPPutative zinc-binding dehydrogenase / 0.681
4j43 NADUncharacterized protein / 0.680
4k28 NADShikimate dehydrogenase family protein / 0.679
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.678
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.676
4mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.676
4wct FADFructosyl amine:oxygen oxidoreductase / 0.676
1hku NADC-terminal-binding protein 1 1.1.1 0.674
5bqf NAPProbable hydroxyacid dehydrogenase protein / 0.673
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.672
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.672
3x2f NAIAdenosylhomocysteinase / 0.672
1sow NADL-lactate dehydrogenase 1.1.1.27 0.671
1teh NADAlcohol dehydrogenase class-3 1.1.1.1 0.671
2x0i NAIMalate dehydrogenase / 0.671
3jyp NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.671
3m6i NADL-arabinitol 4-dehydrogenase 1.1.1.12 0.671
3tri NAPPyrroline-5-carboxylate reductase / 0.671
2d8a NADL-threonine 3-dehydrogenase / 0.670
1dc6 NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.669
1yqx NAPSinapyl alcohol dehydrogenase / 0.669
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.668
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.668
4z0p NDPNAD-dependent dehydrogenase / 0.668
1bw9 NADPhenylalanine dehydrogenase / 0.667
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.666
3jv7 NADSecondary alcohol dehydrogenase / 0.666
3wbf NAPMeso-diaminopimelate D-dehydrogenase / 0.666
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.665
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 0.665
2o4c NADErythronate-4-phosphate dehydrogenase / 0.665
1bdb NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase / 0.664
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.664
3cin NADMyo-inositol-1-phosphate synthase-related protein / 0.664
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.664
4nbw NADShort-chain dehydrogenase/reductase SDR / 0.664
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.663
2q3e NAIUDP-glucose 6-dehydrogenase 1.1.1.22 0.663
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.663
2cda NAPGlucose 1-dehydrogenase / 0.662
2ldb NADL-lactate dehydrogenase 1.1.1.27 0.662
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.662
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.662
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.661
2eer NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.660
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.660
2y05 NAPProstaglandin reductase 1 / 0.660
4lcj NADC-terminal-binding protein 2 / 0.660
1dap NDPMeso-diaminopimelate D-dehydrogenase 1.4.1.16 0.659
1f8f NADBenzyl alcohol dehydrogenase / 0.659
4j4b NAIUncharacterized protein / 0.659
2ome NADC-terminal-binding protein 2 / 0.658
3x2e NAIAdenosylhomocysteinase / 0.658
4rls NAIL-lactate dehydrogenase A chain 1.1.1.27 0.658
1ur5 NADMalate dehydrogenase / 0.657
2dfv NADL-threonine 3-dehydrogenase / 0.656
4oaq NDPR-specific carbonyl reductase / 0.656
4uun NAIL-lactate dehydrogenase / 0.656
4weq NAPNAD-dependent dehydrogenase / 0.655
4yag NAIC alpha-dehydrogenase / 0.655
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.654
1pj3 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.654
3t4e NADQuinate/shikimate dehydrogenase / 0.654
5a1t NAIL-lactate dehydrogenase / 0.654
2xaa NADSecondary alcohol dehydrogenase / 0.653
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.653
1bdm NAXMalate dehydrogenase / 0.652
1pj2 NAINAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.652
2a92 NAIL-lactate dehydrogenase / 0.652
4j49 NAIUncharacterized protein / 0.652
1u8x NADMaltose-6'-phosphate glucosidase 3.2.1.122 0.651
2p9c NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.651
2rcy NAPPyrroline-5-carboxylate reductase / 0.651
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.650
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.650
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.650
5jla NADPutative short-chain dehydrogenase/reductase / 0.650