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
4xgi NAD Glutamate dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4xgi NADGlutamate dehydrogenase / 1.169
3mvq NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.933
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.772
3ggp NADPrephenate dehydrogenase / 0.744
4xb2 NDP319aa long hypothetical homoserine dehydrogenase / 0.744
2rcy NAPPyrroline-5-carboxylate reductase / 0.736
3pef NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.731
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.730
3tnl NADShikimate dehydrogenase (NADP(+)) / 0.729
3zhb NAPPutative dehydrogenase / 0.724
3ing NDPHomoserine dehydrogenase related protein / 0.719
1wp4 NDP3-hydroxyisobutyrate dehydrogenase / 0.715
3d4p NADL-lactate dehydrogenase 1 1.1.1.27 0.711
2cvz NDP3-hydroxyisobutyrate dehydrogenase / 0.708
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.701
3t4e NADQuinate/shikimate dehydrogenase / 0.699
3hwr NDP2-dehydropantoate 2-reductase / 0.696
5bsg NAPPyrroline-5-carboxylate reductase / 0.696
3etg NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.695
3f3s NADLambda-crystallin homolog / 0.695
3q2k NAIProbable oxidoreductase / 0.694
3w6u NAP6-phosphogluconate dehydrogenase, NAD-binding protein / 0.693
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.693
1pj2 NAINAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.692
3dtt NAPNADP oxidoreductase, coenzyme F420-dependent / 0.692
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.692
5js6 NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.692
1hwz NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.691
4b79 NADProbable short-chain dehydrogenase / 0.691
4b8z NAPGDP-L-fucose synthase 1.1.1.271 0.689
2voj NADAlanine dehydrogenase 1.4.1.1 0.687
3wfj NAD2-dehydropantoate 2-reductase / 0.687
2q3e NAIUDP-glucose 6-dehydrogenase 1.1.1.22 0.686
4bv9 NDPKetimine reductase mu-crystallin 1.5.1.25 0.686
5ijz NAPNADP-specific glutamate dehydrogenase 1.4.1.4 0.686
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.685
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.684
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.683
1c1d NAIPhenylalanine dehydrogenase / 0.682
2q1s NAIPutative nucleotide sugar epimerase/ dehydratase / 0.682
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.682
3toz NADShikimate dehydrogenase (NADP(+)) / 0.682
4okn NAIL-lactate dehydrogenase A chain 1.1.1.27 0.682
5a04 NDPGlucose-fructose oxidoreductase / 0.682
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.681
3adp NAILambda-crystallin 1.1.1.45 0.680
3w8f NAD3-hydroxybutyrate dehydrogenase / 0.680
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 0.679
3cea NADMyo-inositol 2-dehydrogenase-like (Promiscuous) / 0.679
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.679
5lc1 NADL-threonine 3-dehydrogenase / 0.679
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.678
1yqx NAPSinapyl alcohol dehydrogenase / 0.678
3lu1 NADUDP-N-acetylglucosamine 4-epimerase / 0.678
3q3c NADNAD-dependent L-serine dehydrogenase / 0.678
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.678
5ein NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.678
1zh8 NAPUncharacterized protein / 0.677
1a4i NDPC-1-tetrahydrofolate synthase, cytoplasmic 1.5.1.5 0.676
1cf2 NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.676
2qw8 NAPEugenol synthase 1 1.1.1.318 0.676
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.676
3w8d NAD3-hydroxybutyrate dehydrogenase / 0.676
2r6j NDPEugenol synthase 1 1.1.1.318 0.675
3ai3 NDPNADPH-sorbose reductase / 0.675
5a03 NDPGlucose-fructose oxidoreductase / 0.675
5a05 NDPGlucose-fructose oxidoreductase / 0.675
1evj NADGlucose--fructose oxidoreductase 1.1.99.28 0.674
1guy NADMalate dehydrogenase / 0.674
3icp NADNAD-dependent epimerase/dehydratase / 0.674
5bsf NADPyrroline-5-carboxylate reductase / 0.674
1pj4 ATPNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.673
4dc1 NDPPutative ketoacyl reductase 1.3.1 0.673
4oqy NDP(S)-imine reductase / 0.673
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.672
3ec7 NADInositol 2-dehydrogenase / 0.672
4dpl NAPMalonyl-CoA reductase 1.2.1.75 0.672
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.671
3abi NADUncharacterized protein / 0.671
5bqf NAPProbable hydroxyacid dehydrogenase protein / 0.671
1qr6 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.670
3ulk NDPKetol-acid reductoisomerase (NADP(+)) / 0.670
3zw9 NADPeroxisomal bifunctional enzyme 1.1.1.35 0.670
4k28 NADShikimate dehydrogenase family protein / 0.670
1gz4 ATPNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.669
2ahr NAPPyrroline-5-carboxylate reductase / 0.668
2ekp NAD2-deoxy-D-gluconate 3-dehydrogenase / 0.668
5jy1 NADPutative short-chain dehydrogenase/reductase / 0.668
4xqc NADHomospermidine synthase 2.5.1.44 0.667
1f17 NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.666
2vq3 NAPMetalloreductase STEAP3 / 0.666
4tvb NADHomospermidine synthase 2.5.1.44 0.666
4xrg NADHomospermidine synthase 2.5.1.44 0.666
5a02 NAPGlucose-fructose oxidoreductase / 0.666
1ofg NDPGlucose--fructose oxidoreductase 1.1.99.28 0.665
2vhv NAIAlanine dehydrogenase 1.4.1.1 0.665
3pqf NADL-lactate dehydrogenase 1.1.1.27 0.665
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.664
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.664
1o9b NAIQuinate/shikimate dehydrogenase / 0.663
2c29 NAPDihydroflavonol 4-reductase / 0.663
4nu6 NADPhosphonate dehydrogenase 1.20.1.1 0.663
5a06 NDPGlucose-fructose oxidoreductase / 0.663
1pj3 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.662
1yjq NAP2-dehydropantoate 2-reductase 1.1.1.169 0.662
3vdq NAD3-hydroxybutyrate dehydrogenase / 0.662
4pxz CLRP2Y purinoceptor 12 / 0.662
4yjd FADD-amino-acid oxidase 1.4.3.3 0.662
3ko8 NADNAD-dependent epimerase/dehydratase / 0.660
3p2o NADBifunctional protein FolD / 0.660
5jsf NAD17-beta-hydroxysteroid dehydrogenase 14 1.1.1 0.660
1gco NADGlucose 1-dehydrogenase 1.1.1.47 0.659
1gee NADGlucose 1-dehydrogenase 1.1.1.47 0.659
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.659
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.659
3ru7 NADUDP-N-acetylglucosamine 4-epimerase / 0.659
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.658
1h6a NDPGlucose--fructose oxidoreductase 1.1.99.28 0.658
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.658
3b20 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.658
3oa2 NADUDP-N-acetyl-2-amino-2-deoxy-D-glucuronate oxidase / 0.658
1h6c NDPGlucose--fructose oxidoreductase 1.1.99.28 0.657
1yon A2R2-dehydropantoate 2-reductase 1.1.1.169 0.657
3cin NADMyo-inositol-1-phosphate synthase-related protein / 0.657
4plp NADHomospermidine synthase 2.5.1.44 0.657
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.656
2dvm NAD439aa long hypothetical malate oxidoreductase (NAD) [malic enzyme] / 0.656
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.656
1i36 NAPConserved protein / 0.655
2g5c NADPrephenate dehydrogenase / 0.655
3keo NADRedox-sensing transcriptional repressor Rex / 0.655
3m2t NADProbable dehydrogenase / 0.655
3o9z NADLipopolysaccaride biosynthesis protein wbpB / 0.655
1h6b NDPGlucose--fructose oxidoreductase 1.1.99.28 0.654
3i6q NDPPutative leucoanthocyanidin reductase 1 / 0.654
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.653
1yqd NAPSinapyl alcohol dehydrogenase / 0.653
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.651
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.651
2d2i NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.651
3tri NAPPyrroline-5-carboxylate reductase / 0.651