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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
4e5k NAD Phosphonate dehydrogenase 1.20.1.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4e5k NADPhosphonate dehydrogenase 1.20.1.1 1.078
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.973
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.923
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.909
4nu6 NADPhosphonate dehydrogenase 1.20.1.1 0.880
2gsd NADFormate dehydrogenase / 0.788
2nad NADFormate dehydrogenase / 0.782
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.760
4ebf NADPhosphonate dehydrogenase 1.20.1.1 0.752
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.747
4j49 NADUncharacterized protein / 0.744
4lcj NADC-terminal-binding protein 2 / 0.743
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.728
4j43 NADUncharacterized protein / 0.723
2o4c NADErythronate-4-phosphate dehydrogenase / 0.720
4k28 NADShikimate dehydrogenase family protein / 0.719
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.713
3baz NAPHydroxyphenylpyruvate reductase 1.1.1.237 0.712
1hku NADC-terminal-binding protein 1 1.1.1 0.711
2dc1 NADProbable L-aspartate dehydrogenase / 0.711
4j4b NAIUncharacterized protein / 0.710
3oet NADErythronate-4-phosphate dehydrogenase / 0.708
4xqc NADHomospermidine synthase 2.5.1.44 0.707
2dbz NAPGlyoxylate reductase 1.1.1.26 0.706
4plp NADHomospermidine synthase 2.5.1.44 0.706
4j49 NAIUncharacterized protein / 0.705
4njo NADD-3-phosphoglycerate dehydrogenase, putative / 0.704
2dbr NAPGlyoxylate reductase 1.1.1.26 0.703
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.702
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.701
3jyo NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.700
1pzg A3DLactate dehydrogenase / 0.698
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.698
4xye NADFormate dehydrogenase / 0.698
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.697
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.696
2voj NADAlanine dehydrogenase 1.4.1.1 0.696
2ome NADC-terminal-binding protein 2 / 0.695
4xq9 NADHomospermidine synthase 2.5.1.44 0.695
3jyp NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.693
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.693
3kb6 NADD-lactate dehydrogenase / 0.691
4xrg NADHomospermidine synthase 2.5.1.44 0.691
1emd NADMalate dehydrogenase / 0.689
2dbq NAPGlyoxylate reductase 1.1.1.26 0.689
3ec7 NADInositol 2-dehydrogenase / 0.689
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.688
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.688
4z0p NDPNAD-dependent dehydrogenase / 0.688
1pzh NADLactate dehydrogenase / 0.686
3kbo NDPGlyoxylate/hydroxypyruvate reductase A / 0.686
4xyb NDPFormate dehydrogenase / 0.684
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.683
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.682
3nt4 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.682
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.682
2yy7 NADL-threonine dehydrogenase / 0.681
4xcv NDPProbable hydroxyacid dehydrogenase protein / 0.681
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.680
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.680
4tvb NADHomospermidine synthase 2.5.1.44 0.679
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.678
4c4o NADSADH / 0.677
1ib6 NADMalate dehydrogenase / 0.676
2hu2 NADC-terminal binding protein 1 / 0.676
3wsw NADL-lactate dehydrogenase / 0.676
4jk3 NADUncharacterized protein / 0.676
1yb5 NAPQuinone oxidoreductase 1.6.5.5 0.675
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.673
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.672
4uun NAIL-lactate dehydrogenase / 0.672
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.671
2vhx NADAlanine dehydrogenase 1.4.1.1 0.671
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.671
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.671
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.670
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.670
4hfm NAP2-alkenal reductase (NADP(+)-dependent) / 0.670
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.669
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.669
2fzw NADAlcohol dehydrogenase class-3 1.1.1.1 0.669
1yqx NAPSinapyl alcohol dehydrogenase / 0.668
2ekl NADD-3-phosphoglycerate dehydrogenase / 0.667
3wle NAD(R)-specific carbonyl reductase / 0.667
2a92 NAIL-lactate dehydrogenase / 0.666
2v7g NADUrocanate hydratase 4.2.1.49 0.666
3abi NADUncharacterized protein / 0.666
3d64 NADAdenosylhomocysteinase / 0.666
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.666
4weq NAPNAD-dependent dehydrogenase / 0.666
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.665
4jji NADAlcohol dehydrogenase class-3 / 0.665
4xr9 TMPCalS8 / 0.665
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.664
4idg NADPutative UDP-glucose 4-epimerase / 0.664
5a1t NAIL-lactate dehydrogenase / 0.664
5lc1 NADL-threonine 3-dehydrogenase / 0.664
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.663
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.663
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.662
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.661
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.661
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.661
1gv0 NADMalate dehydrogenase / 0.660
3adp NAILambda-crystallin 1.1.1.45 0.660
1pjc NADAlanine dehydrogenase / 0.659
2x6t NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.659
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.659
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.659
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.659
1gq2 NAPNADP-dependent malic enzyme 1.1.1.40 0.658
2fkn NADUrocanate hydratase 4.2.1.49 0.658
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.658
1bw9 NADPhenylalanine dehydrogenase / 0.657
1u7h NADPutative ornithine cyclodeaminase / 0.656
2x0i NAIMalate dehydrogenase / 0.656
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.656
1yqd NAPSinapyl alcohol dehydrogenase / 0.655
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.655
2dfd NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.655
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.655
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.655
1f8f NADBenzyl alcohol dehydrogenase / 0.654
1nyt NAPShikimate dehydrogenase (NADP(+)) / 0.654
2dwp ACP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.654
1geg NADDiacetyl reductase [(S)-acetoin forming] 1.1.1.304 0.652
2axn ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 / 0.652
4bv9 NDPKetimine reductase mu-crystallin 1.5.1.25 0.652
2ldb NADL-lactate dehydrogenase 1.1.1.27 0.651
1la2 NADInositol-3-phosphate synthase 5.5.1.4 0.650
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.650
2hun NAD336aa long hypothetical dTDP-glucose 4,6-dehydratase / 0.650