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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
2vhz NAI Alanine dehydrogenase 1.4.1.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2vhz NAIAlanine dehydrogenase 1.4.1.1 1.208
2vhw NAIAlanine dehydrogenase 1.4.1.1 1.129
2vhx NADAlanine dehydrogenase 1.4.1.1 1.107
2vhv NAIAlanine dehydrogenase 1.4.1.1 1.046
2voj NADAlanine dehydrogenase 1.4.1.1 0.985
3adp NAILambda-crystallin 1.1.1.45 0.787
1wwk NAD307aa long hypothetical phosphoglycerate dehydrogenase / 0.783
1pjc NADAlanine dehydrogenase / 0.772
5kjc NAJAlcohol dehydrogenase E chain 1.1.1.1 0.767
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.766
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.764
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.762
2fzw NADAlcohol dehydrogenase class-3 1.1.1.1 0.759
4nd4 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.756
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.753
5kjf NAJAlcohol dehydrogenase E chain 1.1.1.1 0.751
1kol NADGlutathione-independent formaldehyde dehydrogenase / 0.749
4j43 NADUncharacterized protein / 0.749
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.749
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.748
3ggp NADPrephenate dehydrogenase / 0.746
1ht0 NADAlcohol dehydrogenase 1C 1.1.1.1 0.745
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.745
1hf3 NADAlcohol dehydrogenase E chain 1.1.1.1 0.744
5kj6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.744
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.743
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.740
3jv7 NADSecondary alcohol dehydrogenase / 0.739
1axe NADAlcohol dehydrogenase E chain 1.1.1.1 0.737
4c4o NADSADH / 0.737
1yba NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.736
4j4b NAIUncharacterized protein / 0.736
2pa3 NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.734
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.733
2p9g NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.732
1uxk NADMalate dehydrogenase / 0.731
4j49 NADUncharacterized protein / 0.731
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.731
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.730
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.730
4nd3 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.730
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.730
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.730
1t2c NAIL-lactate dehydrogenase 1.1.1.27 0.729
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.729
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.729
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.728
3uko NADAlcohol dehydrogenase class-3 / 0.727
1o6z NADMalate dehydrogenase / 0.723
1a71 NADAlcohol dehydrogenase E chain 1.1.1.1 0.722
1e3l NADAlcohol dehydrogenase 4 1.1.1.1 0.722
2ohx NADAlcohol dehydrogenase E chain 1.1.1.1 0.722
3wle NAD(R)-specific carbonyl reductase / 0.722
4nd2 A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.722
4dl9 NADS-(hydroxymethyl)glutathione dehydrogenase / 0.721
3keo NADRedox-sensing transcriptional repressor Rex / 0.720
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.720
3n7u NADFormate dehydrogenase, chloroplastic/mitochondrial / 0.719
4j49 NAIUncharacterized protein / 0.718
1mgo NADAlcohol dehydrogenase E chain 1.1.1.1 0.716
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.716
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.716
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.716
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.716
3wv7 ADPHmd co-occurring protein HcgE / 0.715
1cdo NADAlcohol dehydrogenase 1 1.1.1.1 0.714
4z0p NDPNAD-dependent dehydrogenase / 0.714
3x2f NAIAdenosylhomocysteinase / 0.713
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.713
4l4s NAIL-lactate dehydrogenase A chain 1.1.1.27 0.712
3oet NADErythronate-4-phosphate dehydrogenase / 0.711
3wv8 ATPHmd co-occurring protein HcgE / 0.711
4k28 NADShikimate dehydrogenase family protein / 0.711
1j49 NADD-lactate dehydrogenase 1.1.1.28 0.708
4lcj NADC-terminal-binding protein 2 / 0.708
3wbf NAPMeso-diaminopimelate D-dehydrogenase / 0.707
2g5c NADPrephenate dehydrogenase / 0.706
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.706
1het NADAlcohol dehydrogenase E chain 1.1.1.1 0.703
2fn7 NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase / 0.702
1f17 NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.701
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.701
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.700
3q2k NAIProbable oxidoreductase / 0.700
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.700
4bv9 NDPKetimine reductase mu-crystallin 1.5.1.25 0.699
2eer NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.698
1pl8 NADSorbitol dehydrogenase 1.1.1.14 0.697
1mp0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.696
2npx NADNADH peroxidase 1.11.1.1 0.696
4weq NAPNAD-dependent dehydrogenase / 0.696
1hsz NADAlcohol dehydrogenase 1B 1.1.1.1 0.695
1x7d NADPutative ornithine cyclodeaminase / 0.695
3ggo NAIPrephenate dehydrogenase / 0.695
3jyo NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.695
1pl6 NADSorbitol dehydrogenase 1.1.1.14 0.694
1u7h NADPutative ornithine cyclodeaminase / 0.694
2cda NAPGlucose 1-dehydrogenase / 0.693
3ket NADRedox-sensing transcriptional repressor Rex / 0.693
4jji NADAlcohol dehydrogenase class-3 / 0.692
3m2t NADProbable dehydrogenase / 0.691
3phi NDPShikimate dehydrogenase (NADP(+)) / 0.691
4gl4 NAIAlcohol dehydrogenase class-3 / 0.691
4xyb NDPFormate dehydrogenase / 0.691
1e3e NAIAlcohol dehydrogenase 4 1.1.1.1 0.689
1hku NADC-terminal-binding protein 1 1.1.1 0.688
1ma0 NADAlcohol dehydrogenase class-3 1.1.1.1 0.688
2a92 NAIL-lactate dehydrogenase / 0.688
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.688
4wct FADFructosyl amine:oxygen oxidoreductase / 0.688
1h6d NDPGlucose--fructose oxidoreductase 1.1.99.28 0.687
2dfd NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.687
3o9z NADLipopolysaccaride biosynthesis protein wbpB / 0.686
1guy NADMalate dehydrogenase / 0.685
1c1d NAIPhenylalanine dehydrogenase / 0.684
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.684
2jhf NADAlcohol dehydrogenase E chain 1.1.1.1 0.684
5a1t NAIL-lactate dehydrogenase / 0.684
2xaa NADSecondary alcohol dehydrogenase / 0.683
3two NDPMannitol dehydrogenase / 0.682
4l0q NADAlcohol dehydrogenase class-3 / 0.682
1uxj NADMalate dehydrogenase / 0.681
2jd1 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.681
1dap NDPMeso-diaminopimelate D-dehydrogenase 1.4.1.16 0.680
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.680
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.680
2fkn NADUrocanate hydratase 4.2.1.49 0.680
3m6i NADL-arabinitol 4-dehydrogenase 1.1.1.12 0.680
4e5k NADPhosphonate dehydrogenase 1.20.1.1 0.680
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.679
1gv0 NADMalate dehydrogenase / 0.679
4cr8 NADN-acylmannosamine 1-dehydrogenase 1.1.1.233 0.679
4gae NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.679
1agn NADAlcohol dehydrogenase class 4 mu/sigma chain 1.1.1.1 0.678
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.677
2ph5 NADHomospermidine synthase / 0.677
4e5n NADPhosphonate dehydrogenase 1.20.1.1 0.677
3orf NADDihydropteridine reductase 1.5.1.34 0.676
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.675
2q3e NAIUDP-glucose 6-dehydrogenase 1.1.1.22 0.675
3nt4 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.675
4nu6 NADPhosphonate dehydrogenase 1.20.1.1 0.675
5bqf NAPProbable hydroxyacid dehydrogenase protein / 0.675
3kb6 NADD-lactate dehydrogenase / 0.673
4ebf NADPhosphonate dehydrogenase 1.20.1.1 0.673
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.673
4oaq NDPR-specific carbonyl reductase / 0.673
3x2e NAIAdenosylhomocysteinase / 0.671
5dt9 NADErythronate-4-phosphate dehydrogenase / 0.671
1heu NADAlcohol dehydrogenase E chain 1.1.1.1 0.670
2dbr NAPGlyoxylate reductase 1.1.1.26 0.670
2x0i NAIMalate dehydrogenase / 0.670
1gq2 NAPNADP-dependent malic enzyme 1.1.1.40 0.669
1j0x NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.669
1nyt NAPShikimate dehydrogenase (NADP(+)) / 0.669
1yqd NAPSinapyl alcohol dehydrogenase / 0.669
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.669
2e37 NADL-lactate dehydrogenase / 0.668
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.668
1llu NADAlcohol dehydrogenase / 0.667
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.666
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.666
4wlu NADMalate dehydrogenase, mitochondrial 1.1.1.37 0.666
2a94 AP0L-lactate dehydrogenase 1.1.1.27 0.665
3jyq NADQuinate/shikimate dehydrogenase (NAD(+)) / 0.665
2ome NADC-terminal-binding protein 2 / 0.664
2q1u NADPutative nucleotide sugar epimerase/ dehydratase / 0.663
4jbi NDPAlcohol dehydrogenase (Zinc) / 0.663
1ptj SNDNAD(P) transhydrogenase subunit alpha part 1 1.6.1.2 0.662
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.662
1wze NADMalate dehydrogenase / 0.662
2gsd NADFormate dehydrogenase / 0.662
3ggg NADPrephenate dehydrogenase / 0.662
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.662
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.661
2dph NADFormaldehyde dismutase / 0.661
4jk3 NADUncharacterized protein / 0.661
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.661
4xcv NDPProbable hydroxyacid dehydrogenase protein / 0.661
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.660
3zw9 NADPeroxisomal bifunctional enzyme 1.1.1.35 0.660
4xqc NADHomospermidine synthase 2.5.1.44 0.660
2dfv NADL-threonine 3-dehydrogenase / 0.659
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.659
3wsw NADL-lactate dehydrogenase / 0.659
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.659
3abi NADUncharacterized protein / 0.658
3h2s NDPPutative NADH-flavin reductase / 0.658
3ntq NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.658
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.658
1o9b NAIQuinate/shikimate dehydrogenase / 0.657
2p9e NAID-3-phosphoglycerate dehydrogenase 1.1.1.95 0.657
3d64 NADAdenosylhomocysteinase / 0.657
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.657
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.657
2ekl NADD-3-phosphoglycerate dehydrogenase / 0.656
2qg4 NADUDP-glucose 6-dehydrogenase 1.1.1.22 0.656
3tnl NADShikimate dehydrogenase (NADP(+)) / 0.656
1adb CNDAlcohol dehydrogenase E chain 1.1.1.1 0.655
1yon A2R2-dehydropantoate 2-reductase 1.1.1.169 0.655
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.655
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.654
3ikt NADRedox-sensing transcriptional repressor Rex / 0.654
3mj4 FADUDP-galactopyranose mutase / 0.654
1bdm NAXMalate dehydrogenase / 0.653
2o4c NADErythronate-4-phosphate dehydrogenase / 0.653
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.653
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.652
3gvi ADPMalate dehydrogenase / 0.652
4b7x NAPProbable oxidoreductase / 0.652
4xq9 NADHomospermidine synthase 2.5.1.44 0.652
4xye NADFormate dehydrogenase / 0.651
1pzg A3DLactate dehydrogenase / 0.650
2nad NADFormate dehydrogenase / 0.650
4xrg NADHomospermidine synthase 2.5.1.44 0.650