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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
1uxj NAD Malate dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
1uxj NADMalate dehydrogenase / 1.061
1uxk NADMalate dehydrogenase / 0.947
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.868
1gv0 NADMalate dehydrogenase / 0.849
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.845
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.836
3wle NAD(R)-specific carbonyl reductase / 0.832
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.831
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.831
4c4o NADSADH / 0.830
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.826
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.825
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.824
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.822
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.822
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.822
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.822
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.821
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.819
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.817
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.817
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.817
2jhf NADAlcohol dehydrogenase E chain 1.1.1.1 0.814
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.810
1pzh NADLactate dehydrogenase / 0.805
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.804
2x0i NAIMalate dehydrogenase / 0.804
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.803
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.801
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.800
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.800
1heu NADAlcohol dehydrogenase E chain 1.1.1.1 0.799
1ur5 NADMalate dehydrogenase / 0.799
1guy NADMalate dehydrogenase / 0.798
1hsz NADAlcohol dehydrogenase 1B 1.1.1.1 0.797
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.797
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.797
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.796
6adh NADAlcohol dehydrogenase E chain 1.1.1.1 0.793
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.792
4j43 NADUncharacterized protein / 0.791
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.789
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.785
4j49 NADUncharacterized protein / 0.784
1agn NADAlcohol dehydrogenase class 4 mu/sigma chain 1.1.1.1 0.779
3jv7 NADSecondary alcohol dehydrogenase / 0.779
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.775
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.774
2voj NADAlanine dehydrogenase 1.4.1.1 0.774
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.766
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.765
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.765
1o6z NADMalate dehydrogenase / 0.764
4dlb NADS-(hydroxymethyl)glutathione dehydrogenase / 0.762
2eer NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.760
1ma0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.759
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.758
4gl4 NAIAlcohol dehydrogenase class-3 / 0.757
1sow NADL-lactate dehydrogenase 1.1.1.27 0.756
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.755
1wze NADMalate dehydrogenase / 0.752
4j49 NAIUncharacterized protein / 0.752
3wsw NADL-lactate dehydrogenase / 0.751
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.750
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.749
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.747
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.747
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.746
2xaa NADSecondary alcohol dehydrogenase / 0.744
4jk3 NADUncharacterized protein / 0.744
1ib6 NADMalate dehydrogenase / 0.743
5mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.743
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.741
4oaq NDPR-specific carbonyl reductase / 0.740
1b8v NADMalate dehydrogenase / 0.737
1bmd NADMalate dehydrogenase / 0.737
1adc PADAlcohol dehydrogenase E chain 1.1.1.1 0.736
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.736
2dfd NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.736
5env NADAlcohol dehydrogenase 1 1.1.1.1 0.736
1adb CNDAlcohol dehydrogenase E chain 1.1.1.1 0.735
4j4b NAIUncharacterized protein / 0.734
2ldb NADL-lactate dehydrogenase 1.1.1.27 0.733
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.732
4i1i NADMalate dehydrogenase / 0.731
3two NDPMannitol dehydrogenase / 0.730
1xcb NADRedox-sensing transcriptional repressor Rex / 0.729
4rqu NADAlcohol dehydrogenase class-P / 0.729
1pjc NADAlanine dehydrogenase / 0.727
1t2d NADL-lactate dehydrogenase 1.1.1.27 0.725
4b7x NAPProbable oxidoreductase / 0.724
1b8u NADMalate dehydrogenase / 0.723
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.723
1axg NADAlcohol dehydrogenase E chain 1.1.1.1 0.722
1yqd NAPSinapyl alcohol dehydrogenase / 0.722
1u7h NADPutative ornithine cyclodeaminase / 0.721
2fzw NADAlcohol dehydrogenase class-3 1.1.1.1 0.721
2vhx NADAlanine dehydrogenase 1.4.1.1 0.721
1e3l NADAlcohol dehydrogenase 4 1.1.1.1 0.720
2a92 NAIL-lactate dehydrogenase / 0.720
4wlu NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.720
1x7d NADPutative ornithine cyclodeaminase / 0.719
1ie3 NADMalate dehydrogenase / 0.718
3jyo NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.717
4jnk NAIL-lactate dehydrogenase A chain 1.1.1.27 0.717
3m6i NADL-arabinitol 4-dehydrogenase 1.1.1.12 0.715
1h2h NADL-aspartate dehydrogenase 1.4.1.21 0.714
2yy7 NADL-threonine dehydrogenase / 0.711
3gvh NADMalate dehydrogenase / 0.711
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.708
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.707
1yqx NAPSinapyl alcohol dehydrogenase / 0.704
4l0q NADAlcohol dehydrogenase class-3 / 0.704
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.704
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.703
1hdz NADAlcohol dehydrogenase 1B 1.1.1.1 0.703
1lso NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.703
4mdh NADMalate dehydrogenase, cytoplasmic 1.1.1.37 0.703
1f8f NADBenzyl alcohol dehydrogenase / 0.701
1wzi NDPMalate dehydrogenase / 0.701
2hjr APRMalate dehydrogenase, adjacent gene encodes predicted lactate dehydrogenase / 0.701
1pzg A3DLactate dehydrogenase / 0.700
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.700
4wlv NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.700
3kb6 NADD-lactate dehydrogenase / 0.699
3tri NAPPyrroline-5-carboxylate reductase / 0.698
1pzf A3DLactate dehydrogenase / 0.697
1j5p NADL-aspartate dehydrogenase 1.4.1.21 0.696
2o4c NADErythronate-4-phosphate dehydrogenase / 0.695
1p1h NADInositol-3-phosphate synthase 5.5.1.4 0.693
3jyq NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.693
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.692
3oet NADErythronate-4-phosphate dehydrogenase / 0.692
1o8c NDPProbable acrylyl-CoA reductase AcuI 1.3.1.84 0.691
5ig2 NADShort-chain dehydrogenase/reductase SDR / 0.691
3qvt NAIMyo-inositol-1-phosphate synthase (Ino1) / 0.689
4ywj NAD4-hydroxy-tetrahydrodipicolinate reductase / 0.688
1llu NADAlcohol dehydrogenase / 0.687
2aa3 AP0L-lactate dehydrogenase / 0.684
2b5v NAPGlucose 1-dehydrogenase / 0.684
3uko NADAlcohol dehydrogenase class-3 / 0.684
4dl9 NADS-(hydroxymethyl)glutathione dehydrogenase / 0.684
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.683
1yb5 NAPQuinone oxidoreductase 1.6.5.5 0.683
2gsd NADFormate dehydrogenase / 0.683
1pl8 NADSorbitol dehydrogenase 1.1.1.14 0.682
3cin NADMyo-inositol-1-phosphate synthase-related protein / 0.682
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.681
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.681
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.681
2y05 NAPProstaglandin reductase 1 / 0.681
4hfm NAP2-alkenal reductase (NADP(+)-dependent) / 0.681
1c1d NAIPhenylalanine dehydrogenase / 0.680
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.679
4lcj NADC-terminal-binding protein 2 / 0.679
1hku NADC-terminal-binding protein 1 1.1.1 0.677
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.677
3d64 NADAdenosylhomocysteinase / 0.677
3m2t NADProbable dehydrogenase / 0.677
1bw9 NADPhenylalanine dehydrogenase / 0.674
1mo9 FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.674
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.673
1zmd NAIDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.673
3pqf NADL-lactate dehydrogenase 1.1.1.27 0.673
3adp NAILambda-crystallin 1.1.1.45 0.672
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.672
3tqh NDPQuinone oxidoreductase / 0.671
4uun NAIL-lactate dehydrogenase / 0.671
2rir NAPDipicolinate synthase subunit A / 0.670
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.670
4hb9 FADUncharacterized protein / 0.670
5bsg NAPPyrroline-5-carboxylate reductase / 0.670
2cda NAPGlucose 1-dehydrogenase / 0.669
2dph NADFormaldehyde dismutase / 0.669
4ejm NAPPutative zinc-binding dehydrogenase / 0.669
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.668
1zem NADXylitol dehydrogenase / 0.668
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.668
3qvw NADMyo-inositol-1-phosphate synthase (Ino1) / 0.668
4k28 NADShikimate dehydrogenase family protein / 0.668
4plp NADHomospermidine synthase 2.5.1.44 0.668
2j3i NAPNADPH-dependent oxidoreductase 2-alkenal reductase 1.3.1.74 0.667
2ome NADC-terminal-binding protein 2 / 0.667
2qg4 NADUDP-glucose 6-dehydrogenase 1.1.1.22 0.667
3nx4 NAPPutative oxidoreductase / 0.667
4cpd NADAlcohol dehydrogenase / 0.667
2e37 NADL-lactate dehydrogenase / 0.666
3abi NADUncharacterized protein / 0.666
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.665
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.665
2dc1 NADProbable L-aspartate dehydrogenase / 0.665
2vwq NAPGlucose 1-dehydrogenase / 0.665
1cdo NADAlcohol dehydrogenase 1 1.1.1.1 0.664
1dxy NADD-2-hydroxyisocaproate dehydrogenase 1.1.1 0.664
2vwh NAPGlucose 1-dehydrogenase / 0.664
1e3e NAIAlcohol dehydrogenase 4 1.1.1.1 0.663
1hzz NADNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.663
1j0x NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.663
1qor NDPQuinone oxidoreductase 1 / 0.663
2igo FADPyranose 2-oxidase / 0.663
4yac NAIC alpha-dehydrogenase / 0.663
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.662
2p9e NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.661
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.661
2fze APRAlcohol dehydrogenase class-3 1.1.1.1 0.660
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.660
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.660
3wds NADNADH-dependent quinuclidinone reductase / 0.660
2x0r NADMalate dehydrogenase / 0.659
3rf7 NADIron-containing alcohol dehydrogenase / 0.659
3wyc NAPMeso-diaminopimelate D-dehydrogenase 1.4.1.16 0.659
4jji NADAlcohol dehydrogenase class-3 / 0.659
2fkn NADUrocanate hydratase 4.2.1.49 0.658
1yl7 NAI4-hydroxy-tetrahydrodipicolinate reductase / 0.657
3x2e NAIAdenosylhomocysteinase / 0.657
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.657
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.656
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.656
1b3r NADAdenosylhomocysteinase 3.3.1.1 0.655
1bdm NAXMalate dehydrogenase / 0.655
4wlo NAIMalate dehydrogenase, mitochondrial 1.1.1.37 0.655
1bdb NADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase / 0.654
2q3e NAIUDP-glucose 6-dehydrogenase 1.1.1.22 0.654
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.654
4pyo SAHCatechol O-methyltransferase 2.1.1.6 0.654
4qi5 FADCellobiose dehydrogenase / 0.654
1e3s NAD3-hydroxyacyl-CoA dehydrogenase type-2 1.1.1.35 0.653
2dvm NAD439aa long hypothetical malate oxidoreductase (NAD) [malic enzyme] / 0.653
2hmv ADPKtr system potassium uptake protein A / 0.653
2j3k NAPNADPH-dependent oxidoreductase 2-alkenal reductase 1.3.1.74 0.653
3tsc NADUncharacterized protein / 0.653
4yag NAIC alpha-dehydrogenase / 0.653
1efk NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.651
2i9k SAHModification methylase HhaI 2.1.1.37 0.651
1ges FADGlutathione reductase 1.8.1.7 0.650
3hdh NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.650
3ihg FADAklavinone 12-hydroxylase RdmE / 0.650
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.650