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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
1rm5 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
1rm5 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.796
1dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.758
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.757
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.750
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.736
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.735
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.735
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.733
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.732
1rm3 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.723
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.723
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.721
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.718
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.715
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.713
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.713
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.713
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.711
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.709
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.704
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.700
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.699
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.699
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.697
2dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.696
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.695
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.691
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.686
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.684
1nqo NADGlyceraldehyde-3-phosphate dehydrogenase / 0.684
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.683
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.682
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.678
4z0h NADGlyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12 0.676
4wji NAPPutative cyclohexadienyl dehydrogenase and ADH prephenate dehydrogenase / 0.671
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.666
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.665
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.664
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.657
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.655
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.653
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.653
3f3s NADLambda-crystallin homolog / 0.652
4dpl NAPMalonyl-CoA reductase 1.2.1.75 0.652
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.651
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.651