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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
2fn7 NAD Lactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 1.120
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 1.063
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 1.055
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 1.029
1pzh NADLactate dehydrogenase / 0.995
1sow NADL-lactate dehydrogenase 1.1.1.27 0.961
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.949
1pzf A3DLactate dehydrogenase / 0.904
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.870
1pzg A3DLactate dehydrogenase / 0.866
5a1t NAIL-lactate dehydrogenase / 0.859
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.856
2aa3 AP0L-lactate dehydrogenase / 0.855
2x0i NAIMalate dehydrogenase / 0.851
2a92 NAIL-lactate dehydrogenase / 0.844
4ros APRMalate dehydrogenase / 0.837
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.831
2dfd NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.822
1uxk NADMalate dehydrogenase / 0.819
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.818
1gv0 NADMalate dehydrogenase / 0.815
1b8v NADMalate dehydrogenase / 0.807
4jnk NAIL-lactate dehydrogenase A chain 1.1.1.27 0.795
4mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.792
1ib6 NADMalate dehydrogenase / 0.790
1wze NADMalate dehydrogenase / 0.785
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.774
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.774
2hjr APRMalate dehydrogenase, adjacent gene encodes predicted lactate dehydrogenase / 0.772
4wlu NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.766
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.765
4wlv NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.765
1bdm NAXMalate dehydrogenase / 0.759
1uxj NADMalate dehydrogenase / 0.758
3gvh NADMalate dehydrogenase / 0.756
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.751
1bmd NADMalate dehydrogenase / 0.749
1c1d NAIPhenylalanine dehydrogenase / 0.749
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.749
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.746
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.744
4j49 NADUncharacterized protein / 0.744
1o6z NADMalate dehydrogenase / 0.739
2voj NADAlanine dehydrogenase 1.4.1.1 0.739
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.737
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.736
2vhx NADAlanine dehydrogenase 1.4.1.1 0.734
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.732
2ekl NADD-3-phosphoglycerate dehydrogenase / 0.731
5mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.731
4oaq NDPR-specific carbonyl reductase / 0.730
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.729
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.728
4i1i NADMalate dehydrogenase / 0.728
1wzi NDPMalate dehydrogenase / 0.727
4c4o NADSADH / 0.726
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.723
4j43 NADUncharacterized protein / 0.723
1yqd NAPSinapyl alcohol dehydrogenase / 0.721
1pjc NADAlanine dehydrogenase / 0.719
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.719
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.718
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.718
4dlb NADS-(hydroxymethyl)glutathione dehydrogenase / 0.718
4xq9 NADHomospermidine synthase 2.5.1.44 0.718
1ie3 NADMalate dehydrogenase / 0.717
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.717
4jji NADAlcohol dehydrogenase class-3 / 0.715
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.715
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.715
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.713
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.713
2yy7 NADL-threonine dehydrogenase / 0.712
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.712
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.711
3h3f NAIL-lactate dehydrogenase A chain 1.1.1.27 0.711
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.711
4jk3 NADUncharacterized protein / 0.711
1ur5 NADMalate dehydrogenase / 0.709
1u7h NADPutative ornithine cyclodeaminase / 0.708
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.708
2eer NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.707
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.707
3uko NADAlcohol dehydrogenase class-3 / 0.707
1ma0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.705
3two NDPMannitol dehydrogenase / 0.705
1e3l NADAlcohol dehydrogenase 4 1.1.1.1 0.704
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.702
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.701
1b8u NADMalate dehydrogenase / 0.700
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.700
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.700
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.699
4e5k NADPhosphonate dehydrogenase 1.20.1.1 0.698
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.697
3wsw NADL-lactate dehydrogenase / 0.697
4j49 NAIUncharacterized protein / 0.697
1emd NADMalate dehydrogenase / 0.695
1f8f NADBenzyl alcohol dehydrogenase / 0.695
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.695
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.695
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.694
4j4b NAIUncharacterized protein / 0.694
3abi NADUncharacterized protein / 0.693
4gl4 NAIAlcohol dehydrogenase class-3 / 0.693
2nad NADFormate dehydrogenase / 0.692
2p9g NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.692
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.690
2p9c NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.690
4ywj NAD4-hydroxy-tetrahydrodipicolinate reductase / 0.690
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.688
2o4c NADErythronate-4-phosphate dehydrogenase / 0.687
2x0r NADMalate dehydrogenase / 0.687
3qvx NADMyo-inositol-1-phosphate synthase (Ino1) / 0.687
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.686
4hfm NAP2-alkenal reductase (NADP(+)-dependent) / 0.686
2gsd NADFormate dehydrogenase / 0.685
4k28 NADShikimate dehydrogenase family protein / 0.685
2dvm NAD439aa long hypothetical malate oxidoreductase (NAD) [malic enzyme] / 0.684
3jyp NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.683
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.683
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.683
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.683
1yqx NAPSinapyl alcohol dehydrogenase / 0.682
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.682
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.680
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.679
3wfj NAD2-dehydropantoate 2-reductase / 0.678
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.677
3tqh NDPQuinone oxidoreductase / 0.677
1pl8 NADSorbitol dehydrogenase 1.1.1.14 0.676
2p9e NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.676
3kbo NDPGlyoxylate/hydroxypyruvate reductase A / 0.675
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.674
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.674
3oet NADErythronate-4-phosphate dehydrogenase / 0.674
3wmx NADNAD dependent epimerase/dehydratase / 0.674
4xrg NADHomospermidine synthase 2.5.1.44 0.674
1x7d NADPutative ornithine cyclodeaminase / 0.673
1axg NADAlcohol dehydrogenase E chain 1.1.1.1 0.672
3gvi ADPMalate dehydrogenase / 0.672
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.671
2fzw NADAlcohol dehydrogenase class-3 1.1.1.1 0.671
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.669
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.669
4cr8 NADN-acylmannosamine 1-dehydrogenase 1.1.1.233 0.669
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.669
1u8x NADMaltose-6'-phosphate glucosidase 3.2.1.122 0.668
2p5y NADUDP-glucose 4-epimerase / 0.668
3ggp NADPrephenate dehydrogenase / 0.668
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.668
1wvg APRCDP-glucose 4,6-dehydratase 4.2.1.45 0.667
1yon A2R2-dehydropantoate 2-reductase 1.1.1.169 0.667
4l0q NADAlcohol dehydrogenase class-3 / 0.666
4weq NAPNAD-dependent dehydrogenase / 0.665
2c29 NAPDihydroflavonol 4-reductase / 0.664
5env NADAlcohol dehydrogenase 1 1.1.1.1 0.664
1hku NADC-terminal-binding protein 1 1.1.1 0.662
2yut NAPPutative short-chain oxidoreductase / 0.662
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.662
2bgm NAJSecoisolariciresinol dehydrogenase 1.1.1.331 0.661
1j0x NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.660
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.660
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.660
2ldb NADL-lactate dehydrogenase 1.1.1.27 0.660
4y1b NAPAntE / 0.660
2xaa NADSecondary alcohol dehydrogenase / 0.659
1h2h NADL-aspartate dehydrogenase 1.4.1.21 0.658
2ejv NADL-threonine 3-dehydrogenase / 0.658
2c20 NADUDP-glucose 4-epimerase / 0.657
4ejm NAPPutative zinc-binding dehydrogenase / 0.657
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.656
3m6i NADL-arabinitol 4-dehydrogenase 1.1.1.12 0.656
1f17 NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.655
1teh NADAlcohol dehydrogenase class-3 1.1.1.1 0.655
3qvs NADMyo-inositol-1-phosphate synthase (Ino1) / 0.655
2cdc NAPGlucose 1-dehydrogenase / 0.654
2x86 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.654
3jv7 NADSecondary alcohol dehydrogenase / 0.653
4tvb NADHomospermidine synthase 2.5.1.44 0.653
1xq6 NAPUncharacterized protein At5g02240 / 0.652
3q3c NADNAD-dependent L-serine dehydrogenase / 0.652
5ijz NAPNADP-specific glutamate dehydrogenase 1.4.1.4 0.652
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.651
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.650
2c59 NADGDP-mannose 3,5-epimerase 5.1.3.18 0.650