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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
4dlb NAD S-(hydroxymethyl)glutathione dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4dlb NADS-(hydroxymethyl)glutathione dehydrogenase / 1.167
4l0q NADAlcohol dehydrogenase class-3 / 0.943
4jji NADAlcohol dehydrogenase class-3 / 0.927
4dl9 NADS-(hydroxymethyl)glutathione dehydrogenase / 0.918
3uko NADAlcohol dehydrogenase class-3 / 0.901
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.893
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.884
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.884
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.876
1ma0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.873
1hsz NADAlcohol dehydrogenase 1B 1.1.1.1 0.867
2fzw NADAlcohol dehydrogenase class-3 1.1.1.1 0.865
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.860
1e3l NADAlcohol dehydrogenase 4 1.1.1.1 0.856
1hdz NADAlcohol dehydrogenase 1B 1.1.1.1 0.849
2jhf NADAlcohol dehydrogenase E chain 1.1.1.1 0.847
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.846
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.835
4oaq NDPR-specific carbonyl reductase / 0.832
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.831
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.830
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.827
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.825
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.825
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.824
2vhx NADAlanine dehydrogenase 1.4.1.1 0.822
4gl4 NAIAlcohol dehydrogenase class-3 / 0.821
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.810
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.810
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.809
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.809
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.809
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.809
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.805
4cpd NADAlcohol dehydrogenase / 0.802
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.800
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.798
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.794
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.794
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.793
3jv7 NADSecondary alcohol dehydrogenase / 0.792
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.791
4c4o NADSADH / 0.791
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.785
1adb CNDAlcohol dehydrogenase E chain 1.1.1.1 0.783
3wle NAD(R)-specific carbonyl reductase / 0.778
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.777
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.777
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.775
2fze APRAlcohol dehydrogenase class-3 1.1.1.1 0.766
1uxj NADMalate dehydrogenase / 0.762
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.762
1adc PADAlcohol dehydrogenase E chain 1.1.1.1 0.761
1yqd NAPSinapyl alcohol dehydrogenase / 0.755
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.755
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.752
1agn NADAlcohol dehydrogenase class 4 mu/sigma chain 1.1.1.1 0.751
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.751
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.749
1axg NADAlcohol dehydrogenase E chain 1.1.1.1 0.745
1uxk NADMalate dehydrogenase / 0.744
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.741
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.739
4rqu NADAlcohol dehydrogenase class-P / 0.739
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.738
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.738
1yqx NAPSinapyl alcohol dehydrogenase / 0.731
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.728
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.727
1cdo NADAlcohol dehydrogenase 1 1.1.1.1 0.725
3two NDPMannitol dehydrogenase / 0.725
3m6i NADL-arabinitol 4-dehydrogenase 1.1.1.12 0.724
1heu NADAlcohol dehydrogenase E chain 1.1.1.1 0.722
2dph NADFormaldehyde dismutase / 0.721
1teh NADAlcohol dehydrogenase class-3 1.1.1.1 0.718
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.718
2cdc NAPGlucose 1-dehydrogenase / 0.717
2xaa NADSecondary alcohol dehydrogenase / 0.717
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.716
4j43 NADUncharacterized protein / 0.715
4ejm NAPPutative zinc-binding dehydrogenase / 0.714
1ez4 NADL-lactate dehydrogenase 1.1.1.27 0.713
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.713
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.713
2voj NADAlanine dehydrogenase 1.4.1.1 0.712
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.712
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.708
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.707
1pl8 NADSorbitol dehydrogenase 1.1.1.14 0.706
5mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.705
1e3e NAIAlcohol dehydrogenase 4 1.1.1.1 0.704
1pjc NADAlanine dehydrogenase / 0.704
2cda NAPGlucose 1-dehydrogenase / 0.704
1f8f NADBenzyl alcohol dehydrogenase / 0.700
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.700
1pzh NADLactate dehydrogenase / 0.699
2g5c NADPrephenate dehydrogenase / 0.699
4jnk NAIL-lactate dehydrogenase A chain 1.1.1.27 0.698
2d8a NADL-threonine 3-dehydrogenase / 0.696
2eer NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.695
4mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.695
1o6z NADMalate dehydrogenase / 0.693
2x0i NAIMalate dehydrogenase / 0.693
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.692
5env NADAlcohol dehydrogenase 1 1.1.1.1 0.692
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.691
1qlh NADAlcohol dehydrogenase E chain 1.1.1.1 0.690
1sow NADL-lactate dehydrogenase 1.1.1.27 0.687
4j49 NAIUncharacterized protein / 0.687
4j49 NADUncharacterized protein / 0.685
4jk3 NADUncharacterized protein / 0.685
1gv0 NADMalate dehydrogenase / 0.684
5a02 NAPGlucose-fructose oxidoreductase / 0.683
5bqf NAPProbable hydroxyacid dehydrogenase protein / 0.683
3f3s NADLambda-crystallin homolog / 0.681
3ggp NADPrephenate dehydrogenase / 0.681
1wze NADMalate dehydrogenase / 0.680
1ib6 NADMalate dehydrogenase / 0.679
4k28 NADShikimate dehydrogenase family protein / 0.677
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.675
1ie3 NADMalate dehydrogenase / 0.675
2b5v NAPGlucose 1-dehydrogenase / 0.675
2dfd NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.675
3ikt NADRedox-sensing transcriptional repressor Rex / 0.674
5ees NAP4-hydroxy-tetrahydrodipicolinate reductase / 0.674
1llu NADAlcohol dehydrogenase / 0.672
4b7x NAPProbable oxidoreductase / 0.672
4uun NAIL-lactate dehydrogenase / 0.672
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.671
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.671
1pzf A3DLactate dehydrogenase / 0.670
2o4c NADErythronate-4-phosphate dehydrogenase / 0.670
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.669
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.669
1b8v NADMalate dehydrogenase / 0.668
3nx4 NAPPutative oxidoreductase / 0.667
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.666
4j4b NAIUncharacterized protein / 0.666
2jkv NAP6-phosphogluconate dehydrogenase, decarboxylating 1.1.1.44 0.665
2ldb NADL-lactate dehydrogenase 1.1.1.27 0.665
3ggo NAIPrephenate dehydrogenase / 0.665
4wlv NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.665
5doz NDPJamJ / 0.665
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.664
4rls NAIL-lactate dehydrogenase A chain 1.1.1.27 0.664
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.664
1bmd NADMalate dehydrogenase / 0.663
3x2f NAIAdenosylhomocysteinase / 0.663
5a1t NAIL-lactate dehydrogenase / 0.663
2a92 NAIL-lactate dehydrogenase / 0.661
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.661
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.660
2ejv NADL-threonine 3-dehydrogenase / 0.659
2j3k NAPNADPH-dependent oxidoreductase 2-alkenal reductase 1.3.1.74 0.659
3zcx NADGlyceraldehyde-3-phosphate dehydrogenase / 0.657
1j49 NADD-lactate dehydrogenase 1.1.1.28 0.656
3h3f NAIL-lactate dehydrogenase A chain 1.1.1.27 0.656
3x2e NAIAdenosylhomocysteinase / 0.656
4gi2 NAPCrotonyl-CoA carboxylase/reductase / 0.656
4lcj NADC-terminal-binding protein 2 / 0.656
2aa3 AP0L-lactate dehydrogenase / 0.655
1nyt NAPShikimate dehydrogenase (NADP(+)) / 0.654
3adp NAILambda-crystallin 1.1.1.45 0.653
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.653
1u7h NADPutative ornithine cyclodeaminase / 0.652
4weq NAPNAD-dependent dehydrogenase / 0.652
5a03 NDPGlucose-fructose oxidoreductase / 0.652
4bv9 NDPKetimine reductase mu-crystallin 1.5.1.25 0.651
4rvu NDPProbable quinone reductase Qor (NADPH:quinone reductase) (Zeta-crystallin homolog protein) / 0.651
1guy NADMalate dehydrogenase / 0.650
1h6d NDPGlucose--fructose oxidoreductase 1.1.99.28 0.650
4i1i NADMalate dehydrogenase / 0.650