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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
4xb1 NDP 319aa long hypothetical homoserine dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4xb1 NDP319aa long hypothetical homoserine dehydrogenase / 1.144
4xb2 NDP319aa long hypothetical homoserine dehydrogenase / 0.897
4oqy NDP(S)-imine reductase / 0.735
3zhb NAPPutative dehydrogenase / 0.729
3ing NDPHomoserine dehydrogenase related protein / 0.725
4xcv NDPProbable hydroxyacid dehydrogenase protein / 0.725
4z0p NDPNAD-dependent dehydrogenase / 0.724
2ph5 NADHomospermidine synthase / 0.715
3kbo NDPGlyoxylate/hydroxypyruvate reductase A / 0.712
1cf2 NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.711
4xq9 NADHomospermidine synthase 2.5.1.44 0.711
1gq2 NAPNADP-dependent malic enzyme 1.1.1.40 0.702
3mvq NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.702
2o4c NADErythronate-4-phosphate dehydrogenase / 0.699
3lzw NAPFerredoxin--NADP reductase 2 1.18.1.2 0.699
3lzx NAPFerredoxin--NADP reductase 2 1.18.1.2 0.699
4gcm NAPThioredoxin reductase 1.8.1.9 0.695
1c1d NAIPhenylalanine dehydrogenase / 0.694
4ccq NAPThioredoxin reductase / 0.692
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.684
3w6u NAP6-phosphogluconate dehydrogenase, NAD-binding protein / 0.683
5lc1 NADL-threonine 3-dehydrogenase / 0.683
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.682
3ai3 NDPNADPH-sorbose reductase / 0.680
4plp NADHomospermidine synthase 2.5.1.44 0.680
5bqf NAPProbable hydroxyacid dehydrogenase protein / 0.680
4tvb NADHomospermidine synthase 2.5.1.44 0.679
4up3 NDPThioredoxin reductase / 0.677
4hwk NAPSepiapterin reductase 1.1.1.153 0.676
4xqc NADHomospermidine synthase 2.5.1.44 0.676
3abi NADUncharacterized protein / 0.675
4qed NAPElxO / 0.675
1i36 NAPConserved protein / 0.674
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.673
2nnl NAPDihydroflavonol 4-reductase 1.1.1.219 0.670
4xrg NADHomospermidine synthase 2.5.1.44 0.670
2q0l NAPThioredoxin reductase 1.8.1.9 0.669
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.669
3qvw NADMyo-inositol-1-phosphate synthase (Ino1) / 0.668
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.668
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.667
4hfm NAP2-alkenal reductase (NADP(+)-dependent) / 0.666
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.665
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.664
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.664
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.664
4ebf NADPhosphonate dehydrogenase 1.20.1.1 0.664
1a4i NDPC-1-tetrahydrofolate synthase, cytoplasmic 1.5.1.5 0.663
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.661
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.661
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.661
1vi2 NADQuinate/shikimate dehydrogenase / 0.660
3a14 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.660
3ngl NAPBifunctional protein FolD / 0.660
4lcj NADC-terminal-binding protein 2 / 0.660
2bd0 NAPSepiapterin reductase / 0.658
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.657
3oet NADErythronate-4-phosphate dehydrogenase / 0.657
4qec NAPElxO / 0.657
3cea NADMyo-inositol 2-dehydrogenase-like (Promiscuous) / 0.655
4weq NAPNAD-dependent dehydrogenase / 0.655
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.654
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.654
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.654
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.654
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.653
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.653
3zcx NADGlyceraldehyde-3-phosphate dehydrogenase / 0.653
2x0r NADMalate dehydrogenase / 0.652
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.652
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.651
3hwr NDP2-dehydropantoate 2-reductase / 0.651
5ein NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.651
1qmg APXKetol-acid reductoisomerase, chloroplastic 1.1.1.86 0.650
1wp4 NDP3-hydroxyisobutyrate dehydrogenase / 0.650
3l0d NADGlyceraldehyde-3-phosphate dehydrogenase / 0.650