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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
5mdh NAD Malate dehydrogenase, cytoplasmic 1.1.1.37

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 1.163
3jv7 NADSecondary alcohol dehydrogenase / 0.754
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.752
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.751
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.751
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.750
4wlu NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.750
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.748
1bmd NADMalate dehydrogenase / 0.747
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.747
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.747
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.746
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.745
1uxj NADMalate dehydrogenase / 0.743
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.743
1uxk NADMalate dehydrogenase / 0.742
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.742
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.741
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.741
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.737
1o6z NADMalate dehydrogenase / 0.736
5env NADAlcohol dehydrogenase 1 1.1.1.1 0.736
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.735
1ma0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.733
4wlv NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.732
2dfd NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.731
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.731
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.731
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.730
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.730
1wze NADMalate dehydrogenase / 0.728
4jk3 NADUncharacterized protein / 0.727
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.725
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.725
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.722
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.722
4mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.720
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.720
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.717
4hfm NAP2-alkenal reductase (NADP(+)-dependent) / 0.716
1ib6 NADMalate dehydrogenase / 0.715
4i1i NADMalate dehydrogenase / 0.715
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.715
1b8v NADMalate dehydrogenase / 0.714
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.712
4j49 NADUncharacterized protein / 0.712
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.709
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.706
1hsz NADAlcohol dehydrogenase 1B 1.1.1.1 0.705
4dlb NADS-(hydroxymethyl)glutathione dehydrogenase / 0.705
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.704
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.704
1heu NADAlcohol dehydrogenase E chain 1.1.1.1 0.703
4j4b NAIUncharacterized protein / 0.702
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.702
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.701
4j43 NADUncharacterized protein / 0.701
2xaa NADSecondary alcohol dehydrogenase / 0.700
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.700
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.699
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.699
2jhf NADAlcohol dehydrogenase E chain 1.1.1.1 0.699
1x7d NADPutative ornithine cyclodeaminase / 0.698
1agn NADAlcohol dehydrogenase class 4 mu/sigma chain 1.1.1.1 0.697
2x0i NAIMalate dehydrogenase / 0.696
1wzi NDPMalate dehydrogenase / 0.695
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.695
4rqu NADAlcohol dehydrogenase class-P / 0.695
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.692
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.692
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.692
1sow NADL-lactate dehydrogenase 1.1.1.27 0.692
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.691
1pzh NADLactate dehydrogenase / 0.691
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.690
3wle NAD(R)-specific carbonyl reductase / 0.690
1c1d NAIPhenylalanine dehydrogenase / 0.687
3m6i NADL-arabinitol 4-dehydrogenase 1.1.1.12 0.687
4c4o NADSADH / 0.687
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.685
4jnk NAIL-lactate dehydrogenase A chain 1.1.1.27 0.684
1pjc NADAlanine dehydrogenase / 0.683
2hjr APRMalate dehydrogenase, adjacent gene encodes predicted lactate dehydrogenase / 0.682
1ie3 NADMalate dehydrogenase / 0.680
3tqh NDPQuinone oxidoreductase / 0.679
1gv0 NADMalate dehydrogenase / 0.675
1yqd NAPSinapyl alcohol dehydrogenase / 0.675
2j3k NAPNADPH-dependent oxidoreductase 2-alkenal reductase 1.3.1.74 0.672
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.672
4b7x NAPProbable oxidoreductase / 0.671
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.670
1bdm NAXMalate dehydrogenase / 0.669
4oaq NDPR-specific carbonyl reductase / 0.668
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.667
3gvh NADMalate dehydrogenase / 0.667
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.667
1hku NADC-terminal-binding protein 1 1.1.1 0.665
2x0r NADMalate dehydrogenase / 0.665
4uun NAIL-lactate dehydrogenase / 0.665
4yr9 NADL-threonine 3-dehydrogenase, mitochondrial 1.1.1.103 0.665
2b5v NAPGlucose 1-dehydrogenase / 0.664
1adb CNDAlcohol dehydrogenase E chain 1.1.1.1 0.663
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.663
1yqx NAPSinapyl alcohol dehydrogenase / 0.662
2o4c NADErythronate-4-phosphate dehydrogenase / 0.660
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.660
2d8a NADL-threonine 3-dehydrogenase / 0.659
4ywj NAD4-hydroxy-tetrahydrodipicolinate reductase / 0.659
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.658
3d64 NADAdenosylhomocysteinase / 0.658
4j49 NAIUncharacterized protein / 0.657
4wlo NAIMalate dehydrogenase, mitochondrial 1.1.1.37 0.656
1pl8 NADSorbitol dehydrogenase 1.1.1.14 0.655
2dph NADFormaldehyde dismutase / 0.655
4ros APRMalate dehydrogenase / 0.655
1pzf A3DLactate dehydrogenase / 0.654
2dvm NAD439aa long hypothetical malate oxidoreductase (NAD) [malic enzyme] / 0.651
2gsd NADFormate dehydrogenase / 0.651
1axg NADAlcohol dehydrogenase E chain 1.1.1.1 0.650
1emd NADMalate dehydrogenase / 0.650