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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
3two NDP Mannitol dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3two NDPMannitol dehydrogenase / 1.314
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 1.036
4oaq NDPR-specific carbonyl reductase / 0.971
1yqd NAPSinapyl alcohol dehydrogenase / 0.962
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.941
3wle NAD(R)-specific carbonyl reductase / 0.929
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.922
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.920
3jv7 NADSecondary alcohol dehydrogenase / 0.914
2eer NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.912
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.901
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.897
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.886
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.885
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.885
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.884
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.882
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.881
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.881
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.881
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.881
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.880
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.877
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.877
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.877
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.864
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.863
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.863
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.862
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.862
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.861
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.861
4c4o NADSADH / 0.861
1heu NADAlcohol dehydrogenase E chain 1.1.1.1 0.860
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.860
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.859
1yqx NAPSinapyl alcohol dehydrogenase / 0.852
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.849
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.848
2jhf NADAlcohol dehydrogenase E chain 1.1.1.1 0.840
5env NADAlcohol dehydrogenase 1 1.1.1.1 0.835
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.833
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.825
1hsz NADAlcohol dehydrogenase 1B 1.1.1.1 0.822
1adc PADAlcohol dehydrogenase E chain 1.1.1.1 0.818
1axg NADAlcohol dehydrogenase E chain 1.1.1.1 0.814
2xaa NADSecondary alcohol dehydrogenase / 0.813
1hdz NADAlcohol dehydrogenase 1B 1.1.1.1 0.798
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.779
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.778
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.777
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.775
1u7h NADPutative ornithine cyclodeaminase / 0.772
1agn NADAlcohol dehydrogenase class 4 mu/sigma chain 1.1.1.1 0.763
1llu NADAlcohol dehydrogenase / 0.757
1adb CNDAlcohol dehydrogenase E chain 1.1.1.1 0.755
1pzh NADLactate dehydrogenase / 0.751
1p0f NAPNADP-dependent alcohol dehydrogenase 1.1.1.2 0.746
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.739
1uxj NADMalate dehydrogenase / 0.730
1x7d NADPutative ornithine cyclodeaminase / 0.729
1sow NADL-lactate dehydrogenase 1.1.1.27 0.727
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.727
2voj NADAlanine dehydrogenase 1.4.1.1 0.725
4dlb NADS-(hydroxymethyl)glutathione dehydrogenase / 0.725
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.723
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.723
5a1t NAIL-lactate dehydrogenase / 0.720
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.719
1o6z NADMalate dehydrogenase / 0.718
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.717
1guf NDPEnoyl-[acyl-carrier-protein] reductase 1, mitochondrial 1.3.1.10 0.716
1o8c NDPProbable acrylyl-CoA reductase AcuI 1.3.1.84 0.714
3baz NAPHydroxyphenylpyruvate reductase 1.1.1.237 0.713
5a02 NAPGlucose-fructose oxidoreductase / 0.712
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.711
2vwh NAPGlucose 1-dehydrogenase / 0.708
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.706
4j43 NADUncharacterized protein / 0.706
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.705
1ma0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.704
1qor NDPQuinone oxidoreductase 1 / 0.697
4jk3 NADUncharacterized protein / 0.697
5a04 NDPGlucose-fructose oxidoreductase / 0.696
1wze NADMalate dehydrogenase / 0.694
2vna NAPProstaglandin reductase 2 1.3.1.48 0.694
4ywj NAD4-hydroxy-tetrahydrodipicolinate reductase / 0.694
1gv0 NADMalate dehydrogenase / 0.692
2x0i NAIMalate dehydrogenase / 0.692
1teh NADAlcohol dehydrogenase class-3 1.1.1.1 0.691
1ib6 NADMalate dehydrogenase / 0.690
1uxk NADMalate dehydrogenase / 0.688
3m6i NADL-arabinitol 4-dehydrogenase 1.1.1.12 0.688
3mvq NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.687
2y05 NAPProstaglandin reductase 1 / 0.684
4rqu NADAlcohol dehydrogenase class-P / 0.683
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.682
3qwb NDPProbable quinone oxidoreductase 1.6.5.5 0.682
4bv9 NDPKetimine reductase mu-crystallin 1.5.1.25 0.682
5a06 NDPGlucose-fructose oxidoreductase / 0.680
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.679
5a05 NDPGlucose-fructose oxidoreductase / 0.679
2fzw NADAlcohol dehydrogenase class-3 1.1.1.1 0.678
2dfd NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.677
2dbz NAPGlyoxylate reductase 1.1.1.26 0.673
3jyn NDPQuinone oxidoreductase / 0.673
1h6d NDPGlucose--fructose oxidoreductase 1.1.99.28 0.672
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.672
2vhx NADAlanine dehydrogenase 1.4.1.1 0.672
3kb6 NADD-lactate dehydrogenase / 0.672
4j49 NADUncharacterized protein / 0.672
1b8u NADMalate dehydrogenase / 0.671
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.671
4i1i NADMalate dehydrogenase / 0.669
4plp NADHomospermidine synthase 2.5.1.44 0.669
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.669
2o4c NADErythronate-4-phosphate dehydrogenase / 0.668
3hwr NDP2-dehydropantoate 2-reductase / 0.668
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.668
4j4b NAIUncharacterized protein / 0.668
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.665
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.665
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.663
4ejm NAPPutative zinc-binding dehydrogenase / 0.662
4l0q NADAlcohol dehydrogenase class-3 / 0.662
5dt9 NADErythronate-4-phosphate dehydrogenase / 0.662
1dap NDPMeso-diaminopimelate D-dehydrogenase 1.4.1.16 0.661
1h6b NDPGlucose--fructose oxidoreductase 1.1.99.28 0.660
2cda NAPGlucose 1-dehydrogenase / 0.660
2ekl NADD-3-phosphoglycerate dehydrogenase / 0.660
4y0k NAPAntE / 0.660
3phi NDPShikimate dehydrogenase (NADP(+)) / 0.659
1ie3 NADMalate dehydrogenase / 0.658
3kbo NDPGlyoxylate/hydroxypyruvate reductase A / 0.658
1bmd NADMalate dehydrogenase / 0.657
2cdc NAPGlucose 1-dehydrogenase / 0.657
2b5v NAPGlucose 1-dehydrogenase / 0.656
4o0l NDPNADPH-dependent 3-quinuclidinone reductase / 0.656
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.655
1h6c NDPGlucose--fructose oxidoreductase 1.1.99.28 0.654
2zb3 NDPProstaglandin reductase 2 1.3.1.48 0.654
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.653
4a1o AMZBifunctional purine biosynthesis protein PurH 2.1.2.3 0.653
4j49 NAIUncharacterized protein / 0.653
1kev NDPNADP-dependent isopropanol dehydrogenase 1.1.1.80 0.652
2cvz NDP3-hydroxyisobutyrate dehydrogenase / 0.652
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.652
4mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.651
4rvu NDPProbable quinone reductase Qor (NADPH:quinone reductase) (Zeta-crystallin homolog protein) / 0.651
1wp4 NDP3-hydroxyisobutyrate dehydrogenase / 0.650
3anm NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.650
4xqc NADHomospermidine synthase 2.5.1.44 0.650
5ees NAP4-hydroxy-tetrahydrodipicolinate reductase / 0.650