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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
1jn0 NDP Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1jn0 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.876
1rm3 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.818
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.802
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.796
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.794
2d2i NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.793
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.787
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.785
2dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.784
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.783
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.783
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.782
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.780
1a7k NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.777
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.773
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.764
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.763
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.763
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.759
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.757
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.756
1nqo NADGlyceraldehyde-3-phosphate dehydrogenase / 0.756
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.756
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.754
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.753
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.752
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.751
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.749
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.749
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.748
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.747
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.746
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.744
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.740
3zcx NADGlyceraldehyde-3-phosphate dehydrogenase / 0.739
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.738
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.735
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.735
1dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.734
1rm4 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.734
2pkr NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.728
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.727
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.726
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.721
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.720
3ksd NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.712
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.711
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.710
4z0h NADGlyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12 0.710
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.708
1ywg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.708
3e5r NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.707
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.706
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.703
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.703
1j0x NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.699
3f3s NADLambda-crystallin homolog / 0.693
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.690
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.686
1qxs NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.686
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.685
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.685
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.684
1znq NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.682
2ixa NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.681
1dc6 NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.675
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.673
3b20 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.672
3ikt NADRedox-sensing transcriptional repressor Rex / 0.671
2f1k NAPPrephenate dehydrogenase / 0.668
1wp4 NDP3-hydroxyisobutyrate dehydrogenase / 0.666
2ixb NADAlpha-N-acetylgalactosaminidase 3.2.1.49 0.666
1cf2 NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.665
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.665
4dpl NAPMalonyl-CoA reductase 1.2.1.75 0.664
3hwr NDP2-dehydropantoate 2-reductase / 0.663
2g5c NADPrephenate dehydrogenase / 0.662
1gyp NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.661
1zh8 NAPUncharacterized protein / 0.661
2cvz NDP3-hydroxyisobutyrate dehydrogenase / 0.661
4om8 NAD3-hydroxybutyryl-coA dehydrogenase / 0.655
1q0q NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.654
4e5p NADPhosphonate dehydrogenase 1.20.1.1 0.654
1gl3 NDPAspartate-semialdehyde dehydrogenase / 0.653
1h6d NDPGlucose--fructose oxidoreductase 1.1.99.28 0.653
4ejm NAPPutative zinc-binding dehydrogenase / 0.652