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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
1ml3 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
1ml3 NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.852
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.736
1rm3 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.732
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.728
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.725
1qxs NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.725
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.715
1a7k NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.711
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.711
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.708
1dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.707
1nqo NADGlyceraldehyde-3-phosphate dehydrogenase / 0.706
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.706
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.700
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.700
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.698
2dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.696
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.696
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.693
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.690
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.690
1gyp NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.689
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.688
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.687
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.680
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.678
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.678
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.675
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.675
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.674
1dc6 NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.673
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.673
2d2i NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.669
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.669
3e5r NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.666
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.665
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.664
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.663
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.660
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.660
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.660
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.659
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.659
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.657
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.657
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.656
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.654
1rm4 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.654
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.652