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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
3x2f NAI Adenosylhomocysteinase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3x2f NAIAdenosylhomocysteinase / 1.171
3d64 NADAdenosylhomocysteinase / 0.822
2q3e NAIUDP-glucose 6-dehydrogenase 1.1.1.22 0.788
1b3r NADAdenosylhomocysteinase 3.3.1.1 0.731
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.724
2vhx NADAlanine dehydrogenase 1.4.1.1 0.723
2fzw NADAlcohol dehydrogenase class-3 1.1.1.1 0.721
1e3l NADAlcohol dehydrogenase 4 1.1.1.1 0.719
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.718
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.713
3keo NADRedox-sensing transcriptional repressor Rex / 0.707
3x2e NAIAdenosylhomocysteinase / 0.705
1hku NADC-terminal-binding protein 1 1.1.1 0.704
1cdo NADAlcohol dehydrogenase 1 1.1.1.1 0.703
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.697
1hdz NADAlcohol dehydrogenase 1B 1.1.1.1 0.695
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.695
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.694
4k28 NADShikimate dehydrogenase family protein / 0.691
1zh8 NAPUncharacterized protein / 0.689
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.685
1yqx NAPSinapyl alcohol dehydrogenase / 0.685
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.685
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.684
1f17 NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.683
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.682
1la2 NADInositol-3-phosphate synthase 5.5.1.4 0.681
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.680
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.680
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.679
3oa2 NADUDP-N-acetyl-2-amino-2-deoxy-D-glucuronate oxidase / 0.679
3tri NAPPyrroline-5-carboxylate reductase / 0.679
2fze APRAlcohol dehydrogenase class-3 1.1.1.1 0.678
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.678
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.677
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.677
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.677
5env NADAlcohol dehydrogenase 1 1.1.1.1 0.676
2dph NADFormaldehyde dismutase / 0.675
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.675
2rcy NAPPyrroline-5-carboxylate reductase / 0.674
3ggo NAIPrephenate dehydrogenase / 0.674
5a02 NAPGlucose-fructose oxidoreductase / 0.674
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.673
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.673
4dl9 NADS-(hydroxymethyl)glutathione dehydrogenase / 0.672
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.671
4tm3 FADKtzI / 0.670
3jyo NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.669
3lov FADProtoporphyrinogen oxidase / 0.669
1gq2 NAPNADP-dependent malic enzyme 1.1.1.40 0.668
3hwr NDP2-dehydropantoate 2-reductase / 0.668
3nt4 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.668
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.667
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.666
1heu NADAlcohol dehydrogenase E chain 1.1.1.1 0.665
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.665
3nt2 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.665
4gae NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.665
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.665
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.664
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.664
1yl7 NAI4-hydroxy-tetrahydrodipicolinate reductase / 0.664
1yon A2R2-dehydropantoate 2-reductase 1.1.1.169 0.664
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.664
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.664
3ec7 NADInositol 2-dehydrogenase / 0.664
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.664
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.664
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.664
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.664
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.664
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.664
1axg NADAlcohol dehydrogenase E chain 1.1.1.1 0.663
1h6c NDPGlucose--fructose oxidoreductase 1.1.99.28 0.663
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.663
1o0s NAINAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.663
2jhf NADAlcohol dehydrogenase E chain 1.1.1.1 0.663
3g5q FADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO / 0.663
4dlb NADS-(hydroxymethyl)glutathione dehydrogenase / 0.663
4ywj NAD4-hydroxy-tetrahydrodipicolinate reductase / 0.663
1llq NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.662
2dfv NADL-threonine 3-dehydrogenase / 0.662
2voj NADAlanine dehydrogenase 1.4.1.1 0.662
3abi NADUncharacterized protein / 0.662
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.662
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.662
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.661
1yqd NAPSinapyl alcohol dehydrogenase / 0.661
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.661
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.660
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.659
1n7h GDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.658
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.658
1agn NADAlcohol dehydrogenase class 4 mu/sigma chain 1.1.1.1 0.657
3q2k NAIProbable oxidoreductase / 0.657
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.657
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.657
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.657
1k0l FADp-hydroxybenzoate hydroxylase / 0.656
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.655
1ryd NDPGlucose--fructose oxidoreductase 1.1.99.28 0.655
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.655
2d1y NADOxidoreductase, short-chain dehydrogenase/reductase family / 0.654
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.654
3jyp NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.654
1pzh NADLactate dehydrogenase / 0.653
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.653
4jnk NAIL-lactate dehydrogenase A chain 1.1.1.27 0.653
5ees NAP4-hydroxy-tetrahydrodipicolinate reductase / 0.652
2g5c NADPrephenate dehydrogenase / 0.651