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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
4nu5 NAD Phosphonate dehydrogenase 1.20.1.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 1.163
4nu6 NADPhosphonate dehydrogenase 1.20.1.1 0.991
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.918
4e5k NADPhosphonate dehydrogenase 1.20.1.1 0.909
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.879
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.803
2gsd NADFormate dehydrogenase / 0.788
4ebf NADPhosphonate dehydrogenase 1.20.1.1 0.773
3baz NAPHydroxyphenylpyruvate reductase 1.1.1.237 0.767
4xcv NDPProbable hydroxyacid dehydrogenase protein / 0.764
4weq NAPNAD-dependent dehydrogenase / 0.746
4z0p NDPNAD-dependent dehydrogenase / 0.745
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.739
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.734
4xyb NDPFormate dehydrogenase / 0.734
5bqf NAPProbable hydroxyacid dehydrogenase protein / 0.727
2dbq NAPGlyoxylate reductase 1.1.1.26 0.725
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.724
4jk3 NADUncharacterized protein / 0.723
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.720
4xye NADFormate dehydrogenase / 0.720
4lcj NADC-terminal-binding protein 2 / 0.718
4jbi NDPAlcohol dehydrogenase (Zinc) / 0.715
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.714
2o4c NADErythronate-4-phosphate dehydrogenase / 0.712
4k28 NADShikimate dehydrogenase family protein / 0.708
4c4o NADSADH / 0.705
1pj2 NAINAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.703
3ing NDPHomoserine dehydrogenase related protein / 0.702
3mvq NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.702
1pj3 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.701
1gq2 NAPNADP-dependent malic enzyme 1.1.1.40 0.700
2ekl NADD-3-phosphoglycerate dehydrogenase / 0.692
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.692
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.689
4njo NADD-3-phosphoglycerate dehydrogenase, putative / 0.687
1efl NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.686
4j49 NADUncharacterized protein / 0.686
4j43 NADUncharacterized protein / 0.684
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.682
4xb1 NDP319aa long hypothetical homoserine dehydrogenase / 0.682
2dc1 NADProbable L-aspartate dehydrogenase / 0.681
2voj NADAlanine dehydrogenase 1.4.1.1 0.680
1yqd NAPSinapyl alcohol dehydrogenase / 0.679
2ome NADC-terminal-binding protein 2 / 0.679
1o0s NAINAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.677
3tnl NADShikimate dehydrogenase (NADP(+)) / 0.675
3wbf NAPMeso-diaminopimelate D-dehydrogenase / 0.674
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.673
3kb6 NADD-lactate dehydrogenase / 0.672
2dbr NAPGlyoxylate reductase 1.1.1.26 0.669
2ph5 NADHomospermidine synthase / 0.669
1ib6 NADMalate dehydrogenase / 0.667
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.667
1q0q NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.667
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.666
1pzg A3DLactate dehydrogenase / 0.665
1yqx NAPSinapyl alcohol dehydrogenase / 0.665
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.665
4j4b NAIUncharacterized protein / 0.665
2jd1 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.664
4xr9 TMPCalS8 / 0.664
5doz NDPJamJ / 0.664
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.663
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.662
4xb2 NDP319aa long hypothetical homoserine dehydrogenase / 0.662
4y1b NAPAntE / 0.662
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.661
4y0k NAPAntE / 0.661
1sow NADL-lactate dehydrogenase 1.1.1.27 0.660
1qr6 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.659
2dbz NAPGlyoxylate reductase 1.1.1.26 0.658
3ec7 NADInositol 2-dehydrogenase / 0.658
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.658
1c1d NAIPhenylalanine dehydrogenase / 0.657
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.657
2jcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.657
3wbb NAPMeso-diaminopimelate D-dehydrogenase / 0.656
4j49 NAIUncharacterized protein / 0.656
4xrg NADHomospermidine synthase 2.5.1.44 0.656
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.655
1adc PADAlcohol dehydrogenase E chain 1.1.1.1 0.655
1x7d NADPutative ornithine cyclodeaminase / 0.655
2p9e NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.655
3nt4 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.653
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.653
5lc1 NADL-threonine 3-dehydrogenase / 0.653
2dfd NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.652
3kbo NDPGlyoxylate/hydroxypyruvate reductase A / 0.652
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.652
3ras NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.651
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.651
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.651
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.650
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.650
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.650