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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
4z0p NDP NAD-dependent dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4z0p NDPNAD-dependent dehydrogenase / 1.295
4weq NAPNAD-dependent dehydrogenase / 1.204
3kbo NDPGlyoxylate/hydroxypyruvate reductase A / 0.930
5bqf NAPProbable hydroxyacid dehydrogenase protein / 0.920
4xcv NDPProbable hydroxyacid dehydrogenase protein / 0.838
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.776
4xyb NDPFormate dehydrogenase / 0.762
4xye NADFormate dehydrogenase / 0.760
3baz NAPHydroxyphenylpyruvate reductase 1.1.1.237 0.750
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.745
2nad NADFormate dehydrogenase / 0.740
3kb6 NADD-lactate dehydrogenase / 0.740
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.736
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.732
2vhx NADAlanine dehydrogenase 1.4.1.1 0.729
2gsd NADFormate dehydrogenase / 0.726
4xb1 NDP319aa long hypothetical homoserine dehydrogenase / 0.724
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.723
2dbr NAPGlyoxylate reductase 1.1.1.26 0.722
4nu6 NADPhosphonate dehydrogenase 1.20.1.1 0.722
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.714
2hu2 NADC-terminal binding protein 1 / 0.711
1ma0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.709
2cvz NDP3-hydroxyisobutyrate dehydrogenase / 0.706
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.704
3wbf NAPMeso-diaminopimelate D-dehydrogenase / 0.701
4ebf NADPhosphonate dehydrogenase 1.20.1.1 0.701
5j23 A2RPutative 2-hydroxyacid dehydrogenase / 0.698
2voj NADAlanine dehydrogenase 1.4.1.1 0.697
2ydx NAPMethionine adenosyltransferase 2 subunit beta / 0.696
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.695
3jv7 NADSecondary alcohol dehydrogenase / 0.695
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.694
2dbz NAPGlyoxylate reductase 1.1.1.26 0.694
4jk3 NADUncharacterized protein / 0.690
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.689
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.689
1wp4 NDP3-hydroxyisobutyrate dehydrogenase / 0.689
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.688
4e5k NADPhosphonate dehydrogenase 1.20.1.1 0.688
1zh8 NAPUncharacterized protein / 0.686
4kwh NAPReductase homolog / 0.686
1ib6 NADMalate dehydrogenase / 0.685
2aa3 AP0L-lactate dehydrogenase / 0.685
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.684
3cea NADMyo-inositol 2-dehydrogenase-like (Promiscuous) / 0.683
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.683
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.683
2dbq NAPGlyoxylate reductase 1.1.1.26 0.682
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.679
2q3e NAIUDP-glucose 6-dehydrogenase 1.1.1.22 0.679
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.679
3ing NDPHomoserine dehydrogenase related protein / 0.679
1qr6 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.678
3h2s NDPPutative NADH-flavin reductase / 0.678
1i36 NAPConserved protein / 0.677
3o26 NDPSalutaridine reductase / 0.677
1n7g NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.676
2gn8 NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting) 4.2.1.115 0.676
1sow NADL-lactate dehydrogenase 1.1.1.27 0.675
1pj3 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.674
1hdo NAPFlavin reductase (NADPH) / 0.672
3o9z NADLipopolysaccaride biosynthesis protein wbpB / 0.672
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.671
1j49 NADD-lactate dehydrogenase 1.1.1.28 0.670
1h5q NAPNADP-dependent mannitol dehydrogenase 1.1.1.138 0.669
3d3w NAPL-xylulose reductase 1.1.1.10 0.669
1bmd NADMalate dehydrogenase / 0.668
4dl9 NADS-(hydroxymethyl)glutathione dehydrogenase / 0.668
1n5d NDPCarbonyl reductase [NADPH] 1 / 0.667
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.667
1pj2 NAINAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.666
2b5o FADFerredoxin--NADP reductase 1.18.1.2 0.665
4l0q NADAlcohol dehydrogenase class-3 / 0.665
1kc1 NDPdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.664
1e3l NADAlcohol dehydrogenase 4 1.1.1.1 0.663
1e5q NDPSaccharopine dehydrogenase [NADP(+), L-glutamate-forming] 1.5.1.10 0.663
3uko NADAlcohol dehydrogenase class-3 / 0.663
4xb2 NDP319aa long hypothetical homoserine dehydrogenase / 0.663
1yqd NAPSinapyl alcohol dehydrogenase / 0.662
4bpr FADFerredoxin--NADP reductase 1.18.1.2 0.662
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.661
2ph5 NADHomospermidine synthase / 0.661
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.660
1do8 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.659
1h2h NADL-aspartate dehydrogenase 1.4.1.21 0.659
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.659
4a5l NDPThioredoxin reductase / 0.659
1wzi NDPMalate dehydrogenase / 0.658
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.657
1gq2 NAPNADP-dependent malic enzyme 1.1.1.40 0.656
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.656
1j7k ATPHolliday junction ATP-dependent DNA helicase RuvB / 0.656
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.656
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.656
4up3 NDPThioredoxin reductase / 0.655
5bsg NAPPyrroline-5-carboxylate reductase / 0.655
3w6u NAP6-phosphogluconate dehydrogenase, NAD-binding protein / 0.654
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.654
3m6i NADL-arabinitol 4-dehydrogenase 1.1.1.12 0.653
3phi NDPShikimate dehydrogenase (NADP(+)) / 0.653
5eio NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.652
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.651
1vi2 NADQuinate/shikimate dehydrogenase / 0.651
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.651
2yy7 NADL-threonine dehydrogenase / 0.651
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.651
4j43 NADUncharacterized protein / 0.651
5a05 NDPGlucose-fructose oxidoreductase / 0.651
1n7h NDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.650
4jbi NDPAlcohol dehydrogenase (Zinc) / 0.650