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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
3e5r 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
3e5r NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.971
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.854
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.832
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.822
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.804
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.803
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.786
1ywg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.785
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.777
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.772
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.771
1dc6 NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.769
4z0h NADGlyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12 0.767
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.767
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.764
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.763
1a7k NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.760
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.760
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.759
1nqo NADGlyceraldehyde-3-phosphate dehydrogenase / 0.757
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.756
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.750
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.747
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.747
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.745
1znq NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.744
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.743
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.741
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.739
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.735
3zcx NADGlyceraldehyde-3-phosphate dehydrogenase / 0.733
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.731
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.726
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.725
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.721
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.719
3ksd NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.719
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.716
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.716
1rm3 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.714
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.714
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.714
1jn0 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.707
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.703
1ihx SNDGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.702
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.701
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.701
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.698
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.698
2dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.697
2d2i NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.692
1dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.691
1gyp NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.691
1rm4 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.691
1j0x NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.687
3b20 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.683
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.671
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.669
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.668
1ml3 NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.666
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.664
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 0.662
1qxs NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.657
3gnq NADGlyceraldehyde-3-phosphate dehydrogenase / 0.657
3ntr NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.657
3f3s NADLambda-crystallin homolog / 0.654
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.653
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.652
3oet NADErythronate-4-phosphate dehydrogenase / 0.651