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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
1gyp NAD Glyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1gyp NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.886
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.810
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.810
1a7k NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.807
1nqo NADGlyceraldehyde-3-phosphate dehydrogenase / 0.801
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.785
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.780
1dc6 NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.778
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.774
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.773
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.773
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.771
4z0h NADGlyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12 0.771
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.770
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.768
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.767
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.767
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.766
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.765
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.765
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.761
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.759
3zcx NADGlyceraldehyde-3-phosphate dehydrogenase / 0.758
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.757
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.755
3ksd NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.754
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.754
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.751
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.750
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.749
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.747
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.746
1rm3 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.745
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.745
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.743
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.741
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.738
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.737
2d2i NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.732
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.732
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.731
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.730
1qxs NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.729
2dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.728
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.728
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.727
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.724
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.722
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.720
1znq NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.717
1dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.716
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.716
1ywg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.714
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.702
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.699
3e5r NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.691
1ml3 NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.689
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.680
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.678
3l0d NADGlyceraldehyde-3-phosphate dehydrogenase / 0.675
2pkr NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.674
1gae NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.673
4om8 NAD3-hydroxybutyryl-coA dehydrogenase / 0.663
1j0x NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.662
1jn0 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.661
1lsj NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.660
3qw2 NADMyo-inositol-1-phosphate synthase (Ino1) / 0.656
3qvt NAIMyo-inositol-1-phosphate synthase (Ino1) / 0.653
4ywj NAD4-hydroxy-tetrahydrodipicolinate reductase / 0.653
1rm4 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.650