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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
3v1y NAD Glyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 1.032
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.951
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.935
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.933
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.932
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.920
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.911
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.905
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.904
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.894
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.887
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.882
1ywg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.881
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.881
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.875
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.875
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.872
1rm3 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.871
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.870
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.867
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.866
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.864
3zcx NADGlyceraldehyde-3-phosphate dehydrogenase / 0.864
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.864
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.863
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.858
3ksd NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.854
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.851
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.850
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.841
2dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.836
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.832
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.829
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.827
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.827
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.826
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.821
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.817
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.812
1znq NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.811
1nqo NADGlyceraldehyde-3-phosphate dehydrogenase / 0.807
3e5r NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.803
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.801
4z0h NADGlyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12 0.801
1a7k NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.796
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.790
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.789
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.779
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.778
1jn0 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.773
1dc6 NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.772
1j0x NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.762
1dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.755
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.752
3keo NADRedox-sensing transcriptional repressor Rex / 0.728
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.719
2d2i NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.718
3tri NAPPyrroline-5-carboxylate reductase / 0.717
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.715
1rm4 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.709
3f3s NADLambda-crystallin homolog / 0.708
1ihx SNDGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.706
1gyp NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.702
3l0d NADGlyceraldehyde-3-phosphate dehydrogenase / 0.697
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.696
2o4c NADErythronate-4-phosphate dehydrogenase / 0.694
2rcy NAPPyrroline-5-carboxylate reductase / 0.689
1qxs NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.687
2ome NADC-terminal-binding protein 2 / 0.687
3ikt NADRedox-sensing transcriptional repressor Rex / 0.683
2wsb NADGalactitol dehydrogenase / 0.681
1gae NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.680
3hwr NDP2-dehydropantoate 2-reductase / 0.679
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.678
1o6z NADMalate dehydrogenase / 0.678
3ntr NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.678
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.677
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.676
3b20 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.676
3oet NADErythronate-4-phosphate dehydrogenase / 0.673
4hb9 FADUncharacterized protein / 0.673
4om8 NAD3-hydroxybutyryl-coA dehydrogenase / 0.673
4xq9 NADHomospermidine synthase 2.5.1.44 0.673
4j33 FADKynurenine 3-monooxygenase / 0.672
1la2 NADInositol-3-phosphate synthase 5.5.1.4 0.671
1h2b NAJNAD-dependent alcohol dehydrogenase / 0.670
1yjq NAP2-dehydropantoate 2-reductase 1.1.1.169 0.670
1f17 NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.668
1hku NADC-terminal-binding protein 1 1.1.1 0.668
3adp NAILambda-crystallin 1.1.1.45 0.668
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.667
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.665
3hdh NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.665
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.664
4tvb NADHomospermidine synthase 2.5.1.44 0.663
2pkr NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.662
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.661
1uxj NADMalate dehydrogenase / 0.660
1cf2 NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.657
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.657
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.656
2vhx NADAlanine dehydrogenase 1.4.1.1 0.656
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.655
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.654
4yac NAIC alpha-dehydrogenase / 0.654
1lso NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.653
1rm5 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.653
3oc4 FADOxidoreductase, pyridine nucleotide-disulfide family / 0.653
4gkv NADAlcohol dehydrogenase, propanol-preferring 1.1.1.1 0.653
4fn4 NADShort chain dehydrogenase / 0.652
5bsg NAPPyrroline-5-carboxylate reductase / 0.652
2f1k NAPPrephenate dehydrogenase / 0.651
2vhw NAIAlanine dehydrogenase 1.4.1.1 0.651
3ket NADRedox-sensing transcriptional repressor Rex / 0.651
3jv7 NADSecondary alcohol dehydrogenase / 0.650
4gh5 NADShort-chain dehydrogenase/reductase SDR / 0.650