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
4o63 NAD Glyceraldehyde-3-phosphate dehydrogenase 1.2.1.12

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 1.034
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.940
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.940
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.917
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.911
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.909
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.887
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.880
3zcx NADGlyceraldehyde-3-phosphate dehydrogenase / 0.880
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.869
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.864
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.864
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.859
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.857
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.855
1ywg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.854
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.841
4z0h NADGlyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12 0.841
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.833
1znq NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.832
1dc6 NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.826
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.826
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.825
3e5r NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.822
1j0x NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.820
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.813
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.808
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.807
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.797
1a7k NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.794
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.791
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.790
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.788
1nqo NADGlyceraldehyde-3-phosphate dehydrogenase / 0.787
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.785
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.778
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.777
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.776
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.775
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.775
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.774
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.773
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.772
2dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.772
3ksd NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.762
2d2i NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.758
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.754
1jn0 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.749
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.748
3l0d NADGlyceraldehyde-3-phosphate dehydrogenase / 0.747
1rm3 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.744
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.743
1f17 NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.738
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.736
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.736
1gae NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.734
2g5c NADPrephenate dehydrogenase / 0.732
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.731
1rm4 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.730
3adp NAILambda-crystallin 1.1.1.45 0.728
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.727
3keq NADRedox-sensing transcriptional repressor Rex / 0.721
1gyp NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.720
4dl9 NADS-(hydroxymethyl)glutathione dehydrogenase / 0.717
1guy NADMalate dehydrogenase / 0.715
1ihx SNDGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.713
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.711
3ggp NADPrephenate dehydrogenase / 0.711
3b20 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.709
3f3s NADLambda-crystallin homolog / 0.704
1dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.702
1lso NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.700
3ggo NAIPrephenate dehydrogenase / 0.699
1qxs NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.698
2vhx NADAlanine dehydrogenase 1.4.1.1 0.696
3pqf NADL-lactate dehydrogenase 1.1.1.27 0.695
3oet NADErythronate-4-phosphate dehydrogenase / 0.694
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 0.693
5eio NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.693
4xgi NADGlutamate dehydrogenase / 0.692
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.690
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.689
5ein NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.689
3tnl NADShikimate dehydrogenase (NADP(+)) / 0.687
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.685
2pkr NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.684
2rcy NAPPyrroline-5-carboxylate reductase / 0.684
3tri NAPPyrroline-5-carboxylate reductase / 0.684
4xq9 NADHomospermidine synthase 2.5.1.44 0.684
4xqc NADHomospermidine synthase 2.5.1.44 0.684
4xrg NADHomospermidine synthase 2.5.1.44 0.684
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.683
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.682
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.681
4plp NADHomospermidine synthase 2.5.1.44 0.680
3keo NADRedox-sensing transcriptional repressor Rex / 0.677
4k28 NADShikimate dehydrogenase family protein / 0.676
2hdh NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.674
3hdh NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.674
3t4e NADQuinate/shikimate dehydrogenase / 0.674
3zw9 NADPeroxisomal bifunctional enzyme 1.1.1.35 0.674
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.672
2ahr NAPPyrroline-5-carboxylate reductase / 0.672
3uko NADAlcohol dehydrogenase class-3 / 0.672
1q0q NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.670
3mvq NDPGlutamate dehydrogenase 1, mitochondrial 1.4.1.3 0.670
4xb1 NDP319aa long hypothetical homoserine dehydrogenase / 0.669
3ket NADRedox-sensing transcriptional repressor Rex / 0.668
4ebf NADPhosphonate dehydrogenase 1.20.1.1 0.667
3w6u NAP6-phosphogluconate dehydrogenase, NAD-binding protein / 0.666
4xb2 NDP319aa long hypothetical homoserine dehydrogenase / 0.666
5bsf NADPyrroline-5-carboxylate reductase / 0.666
4kug NAD3-hydroxybutyryl-CoA dehydrogenase / 0.664
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.660
1hyh NADL-2-hydroxyisocaproate dehydrogenase / 0.659
3ec7 NADInositol 2-dehydrogenase / 0.659
1gl3 NDPAspartate-semialdehyde dehydrogenase / 0.658
3o9z NADLipopolysaccaride biosynthesis protein wbpB / 0.658
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.657
3anl NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.657
3cin NADMyo-inositol-1-phosphate synthase-related protein / 0.657
4j43 NADUncharacterized protein / 0.656
2f1k NAPPrephenate dehydrogenase / 0.655
3m2t NADProbable dehydrogenase / 0.655
3gnq NADGlyceraldehyde-3-phosphate dehydrogenase / 0.654
4tvb NADHomospermidine synthase 2.5.1.44 0.654
2nad NADFormate dehydrogenase / 0.653
3gvi ADPMalate dehydrogenase / 0.653
4egb NADdTDP-glucose 4,6-dehydratase / 0.652
1cf2 NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.650
2o4c NADErythronate-4-phosphate dehydrogenase / 0.650
4nfh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.650