Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
3o9z NAD Lipopolysaccaride biosynthesis protein wbpB

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3o9z NADLipopolysaccaride biosynthesis protein wbpB / 1.257
3oa2 NADUDP-N-acetyl-2-amino-2-deoxy-D-glucuronate oxidase / 0.857
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.799
2glx NDP1,5-anhydro-D-fructose reductase / 0.795
3q2k NAIProbable oxidoreductase / 0.784
1h6c NDPGlucose--fructose oxidoreductase 1.1.99.28 0.769
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.761
1h6d NDPGlucose--fructose oxidoreductase 1.1.99.28 0.760
1zh8 NAPUncharacterized protein / 0.760
5a02 NAPGlucose-fructose oxidoreductase / 0.759
1h6a NDPGlucose--fructose oxidoreductase 1.1.99.28 0.752
1evj NADGlucose--fructose oxidoreductase 1.1.99.28 0.744
1ryd NDPGlucose--fructose oxidoreductase 1.1.99.28 0.743
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.739
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.731
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.715
5a06 NDPGlucose-fructose oxidoreductase / 0.714
2h63 NAPBiliverdin reductase A 1.3.1.24 0.709
3adp NAILambda-crystallin 1.1.1.45 0.708
3ikt NADRedox-sensing transcriptional repressor Rex / 0.708
5a03 NDPGlucose-fructose oxidoreductase / 0.706
5a04 NDPGlucose-fructose oxidoreductase / 0.706
3sxp NADADP-L-glycero-D-mannoheptose-6-epimerase / 0.705
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.704
1r37 NADNAD-dependent alcohol dehydrogenase 1.1.1.1 0.704
2x86 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.704
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.699
4pxz CLRP2Y purinoceptor 12 / 0.698
1h6b NDPGlucose--fructose oxidoreductase 1.1.99.28 0.695
2nad NADFormate dehydrogenase / 0.695
4xrg NADHomospermidine synthase 2.5.1.44 0.694
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.692
4xqc NADHomospermidine synthase 2.5.1.44 0.690
5a05 NDPGlucose-fructose oxidoreductase / 0.690
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.689
1kvr NADUDP-glucose 4-epimerase 5.1.3.2 0.687
1o6z NADMalate dehydrogenase / 0.687
1i3l NADUDP-glucose 4-epimerase / 0.686
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.686
1n7h GDPGDP-mannose 4,6 dehydratase 2 4.2.1.47 0.685
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.684
1eq2 NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.683
1rye NDPGlucose--fructose oxidoreductase 1.1.99.28 0.683
2x6t NAPADP-L-glycero-D-manno-heptose-6-epimerase / 0.683
4plp NADHomospermidine synthase 2.5.1.44 0.682
3f3s NADLambda-crystallin homolog / 0.680
5lc1 NADL-threonine 3-dehydrogenase / 0.680
2cvz NDP3-hydroxyisobutyrate dehydrogenase / 0.675
3cea NADMyo-inositol 2-dehydrogenase-like (Promiscuous) / 0.673
3l8k ADPDihydrolipoamide dehydrogenase (PdhD-3) / 0.673
5bsg NAPPyrroline-5-carboxylate reductase / 0.673
1f3l SAHProtein arginine N-methyltransferase 3 / 0.672
4z0p NDPNAD-dependent dehydrogenase / 0.672
1t2a GDPGDP-mannose 4,6 dehydratase 4.2.1.47 0.671
1yjq NAP2-dehydropantoate 2-reductase 1.1.1.169 0.670
1axg NADAlcohol dehydrogenase E chain 1.1.1.1 0.669
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.669
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.667
3ntr NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.667
1u3v NADAlcohol dehydrogenase 1B 1.1.1.1 0.666
2g76 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.666
1ofg NDPGlucose--fructose oxidoreductase 1.1.99.28 0.665
3keo NADRedox-sensing transcriptional repressor Rex / 0.665
4om8 NAD3-hydroxybutyryl-coA dehydrogenase / 0.664
4xq9 NADHomospermidine synthase 2.5.1.44 0.664
3tdk UPGUDP-glucose 6-dehydrogenase 1.1.1.22 0.663
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.660
3ggo NAIPrephenate dehydrogenase / 0.660
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.660
4weq NAPNAD-dependent dehydrogenase / 0.660
1n2s NAIdTDP-4-dehydrorhamnose reductase 1.1.1.133 0.659
3i6q NDPPutative leucoanthocyanidin reductase 1 / 0.659
3hwr NDP2-dehydropantoate 2-reductase / 0.658
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.658
2v7g NADUrocanate hydratase 4.2.1.49 0.656
3jv7 NADSecondary alcohol dehydrogenase / 0.656
3khu UPGUDP-glucose 6-dehydrogenase 1.1.1.22 0.655
4xgi NADGlutamate dehydrogenase / 0.655
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.655
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.654
1n5i TMPThymidylate kinase 2.7.4.9 0.654
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.654
3mvq NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.654
5bsf NADPyrroline-5-carboxylate reductase / 0.654
1lde NADAlcohol dehydrogenase E chain 1.1.1.1 0.653
2oxi NADAlcohol dehydrogenase E chain 1.1.1.1 0.653
3cos NADAlcohol dehydrogenase 4 1.1.1.1 0.653
3l0d NADGlyceraldehyde-3-phosphate dehydrogenase / 0.653
4tvb NADHomospermidine synthase 2.5.1.44 0.653
1xg5 NAPDehydrogenase/reductase SDR family member 11 / 0.652
2gsd NADFormate dehydrogenase / 0.652
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.652
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.652
3oet NADErythronate-4-phosphate dehydrogenase / 0.652
3wfj NAD2-dehydropantoate 2-reductase / 0.652
5fa5 MTAProtein arginine N-methyltransferase 5 / 0.652
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.651
1kph SAHCyclopropane mycolic acid synthase 1 2.1.1.79 0.650
3ggp NADPrephenate dehydrogenase / 0.650