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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
1rm3 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
1rm3 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.977
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.898
2dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.888
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.885
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.884
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.871
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.871
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.871
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.870
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.869
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.867
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.866
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.859
3zcx NADGlyceraldehyde-3-phosphate dehydrogenase / 0.859
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.858
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.855
1nqo NADGlyceraldehyde-3-phosphate dehydrogenase / 0.853
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.851
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.848
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.848
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.847
1a7k NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.843
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.838
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.837
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.836
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.836
2d2i NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.834
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.833
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.832
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.832
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.830
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.824
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.819
1jn0 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.818
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.818
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.818
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.805
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.800
3ksd NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.799
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.798
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.793
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.790
1dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.785
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.781
1dc6 NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.779
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.778
1ywg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.770
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.766
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.765
2pkr NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.764
1rm4 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.761
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.753
1qxs NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.750
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.750
4z0h NADGlyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12 0.750
1gyp NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.745
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.744
1ml3 NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.732
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.727
1rm5 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.723
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.716
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.715
3e5r NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.714
1znq NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.704
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.695
3b20 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.686
1j0x NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.685
1cf2 NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.680
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.679
3l0d NADGlyceraldehyde-3-phosphate dehydrogenase / 0.677
3ikt NADRedox-sensing transcriptional repressor Rex / 0.667
1ihx SNDGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.664
4om8 NAD3-hydroxybutyryl-coA dehydrogenase / 0.663
5ein NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.662
3tri NAPPyrroline-5-carboxylate reductase / 0.656