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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
4wlu NAD Malate dehydrogenase, mitochondrial 1.1.1.37

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4wlu NADMalate dehydrogenase, mitochondrial 1.1.1.37 1.051
2dfd NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.996
4wlv NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.983
1ib6 NADMalate dehydrogenase / 0.907
1ie3 NADMalate dehydrogenase / 0.851
1pzh NADLactate dehydrogenase / 0.847
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.829
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.819
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.816
4jnk NAIL-lactate dehydrogenase A chain 1.1.1.27 0.810
1sow NADL-lactate dehydrogenase 1.1.1.27 0.809
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.806
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.805
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.793
1bmd NADMalate dehydrogenase / 0.781
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.781
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.778
1gv0 NADMalate dehydrogenase / 0.775
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.775
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.774
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.773
1wze NADMalate dehydrogenase / 0.771
2a92 NAIL-lactate dehydrogenase / 0.769
1pzf A3DLactate dehydrogenase / 0.766
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.766
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.763
4wlo NAIMalate dehydrogenase, mitochondrial 1.1.1.37 0.762
1uxk NADMalate dehydrogenase / 0.760
1obb NADAlpha-glucosidase 3.2.1.20 0.758
4c4o NADSADH / 0.753
5mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.750
1u7h NADPutative ornithine cyclodeaminase / 0.749
4mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.746
1emd NADMalate dehydrogenase / 0.745
2x0i NAIMalate dehydrogenase / 0.741
1pzg A3DLactate dehydrogenase / 0.740
1bdm NAXMalate dehydrogenase / 0.737
4ros APRMalate dehydrogenase / 0.736
3jv7 NADSecondary alcohol dehydrogenase / 0.735
1o6z NADMalate dehydrogenase / 0.734
2aa3 AP0L-lactate dehydrogenase / 0.734
1x7d NADPutative ornithine cyclodeaminase / 0.732
2hjr APRMalate dehydrogenase, adjacent gene encodes predicted lactate dehydrogenase / 0.728
5a1t NAIL-lactate dehydrogenase / 0.727
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.725
1wzi NDPMalate dehydrogenase / 0.724
2eer NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.723
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.723
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.723
1ma0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.722
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.722
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.721
1uxj NADMalate dehydrogenase / 0.720
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.720
2dvm NAD439aa long hypothetical malate oxidoreductase (NAD) [malic enzyme] / 0.719
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.719
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.719
1b8v NADMalate dehydrogenase / 0.717
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.717
4jk3 NADUncharacterized protein / 0.715
1up7 NAD6-phospho-beta-glucosidase BglT 3.2.1.86 0.714
4j43 NADUncharacterized protein / 0.713
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.711
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.709
1c1d NAIPhenylalanine dehydrogenase / 0.708
4j49 NADUncharacterized protein / 0.707
2x0r NADMalate dehydrogenase / 0.701
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.697
3m6i NADL-arabinitol 4-dehydrogenase 1.1.1.12 0.691
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.691
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.688
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.688
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.687
2gsd NADFormate dehydrogenase / 0.687
2dfv NADL-threonine 3-dehydrogenase / 0.686
2dbz NAPGlyoxylate reductase 1.1.1.26 0.684
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.683
4i1i NADMalate dehydrogenase / 0.683
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.682
1axg NADAlcohol dehydrogenase E chain 1.1.1.1 0.681
1hdz NADAlcohol dehydrogenase 1B 1.1.1.1 0.681
3wv7 ADPHmd co-occurring protein HcgE / 0.681
1hsz NADAlcohol dehydrogenase 1B 1.1.1.1 0.680
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.678
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.677
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.677
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.677
1bw9 NADPhenylalanine dehydrogenase / 0.675
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.675
4lcj NADC-terminal-binding protein 2 / 0.675
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.675
5env NADAlcohol dehydrogenase 1 1.1.1.1 0.675
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.674
2d8a NADL-threonine 3-dehydrogenase / 0.673
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.673
1yb5 NAPQuinone oxidoreductase 1.6.5.5 0.672
2vhx NADAlanine dehydrogenase 1.4.1.1 0.672
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.668
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.668
2p9g NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.668
3d64 NADAdenosylhomocysteinase / 0.668
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.666
4rls NAIL-lactate dehydrogenase A chain 1.1.1.27 0.666
3ec7 NADInositol 2-dehydrogenase / 0.665
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.665
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.665
2fzw NADAlcohol dehydrogenase class-3 1.1.1.1 0.664
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.664
3wv8 ATPHmd co-occurring protein HcgE / 0.664
2p9e NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.663
3tqh NDPQuinone oxidoreductase / 0.662
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.661
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.660
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.659
1hzz NADNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.657
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.657
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.657
3tsc NADUncharacterized protein / 0.657
1ky4 NADAdenosylhomocysteinase 3.3.1.1 0.656
2ome NADC-terminal-binding protein 2 / 0.656
3ggo NAIPrephenate dehydrogenase / 0.656
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.655
4j49 NAIUncharacterized protein / 0.655
2pv7 NADT-protein 1.3.1.12 0.653
3kb6 NADD-lactate dehydrogenase / 0.653
1adb CNDAlcohol dehydrogenase E chain 1.1.1.1 0.652
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.652
3h3f NAIL-lactate dehydrogenase A chain 1.1.1.27 0.652
4uun NAIL-lactate dehydrogenase / 0.652
2cvq NDPMalate dehydrogenase / 0.651
3ggp NADPrephenate dehydrogenase / 0.651
3wle NAD(R)-specific carbonyl reductase / 0.651
4j4b NAIUncharacterized protein / 0.651
1pl8 NADSorbitol dehydrogenase 1.1.1.14 0.650
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.650