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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
1gae NAD Glyceraldehyde-3-phosphate dehydrogenase A

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1gae NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.842
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.734
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.731
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.725
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.725
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.724
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.720
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.716
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.713
4z0h NADGlyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12 0.713
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.706
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.705
1ywg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.703
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.703
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.701
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.701
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.701
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.699
1ihx SNDGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.697
1znq NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.696
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.696
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.695
3keq NADRedox-sensing transcriptional repressor Rex / 0.695
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.694
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.693
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.692
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.692
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.692
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.691
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.691
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.690
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.689
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.686
3f3s NADLambda-crystallin homolog / 0.684
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.682
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.680
4k28 NADShikimate dehydrogenase family protein / 0.680
1nqo NADGlyceraldehyde-3-phosphate dehydrogenase / 0.679
1dc6 NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.677
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.675
3adp NAILambda-crystallin 1.1.1.45 0.675
3ggp NADPrephenate dehydrogenase / 0.674
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.674
1gyp NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.673
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.673
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.672
3hdh NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.672
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.672
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.669
3m2t NADProbable dehydrogenase / 0.669
1a7k NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.667
4xr9 NADCalS8 / 0.667
5lc1 NADL-threonine 3-dehydrogenase / 0.667
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.666
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.666
1guy NADMalate dehydrogenase / 0.665
1ur5 NADMalate dehydrogenase / 0.665
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.662
2hjr APRMalate dehydrogenase, adjacent gene encodes predicted lactate dehydrogenase / 0.661
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.661
2o4c NADErythronate-4-phosphate dehydrogenase / 0.660
3nt2 NADInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.660
2g5c NADPrephenate dehydrogenase / 0.658
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.657
3abi NADUncharacterized protein / 0.656
4ywj NAD4-hydroxy-tetrahydrodipicolinate reductase / 0.656
1c1d NAIPhenylalanine dehydrogenase / 0.654
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.654
4xd2 NAIAlcohol dehydrogenase E chain 1.1.1.1 0.654
3ksd NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.653
4xq9 NADHomospermidine synthase 2.5.1.44 0.653
1bw9 NADPhenylalanine dehydrogenase / 0.652
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.652
3ket NADRedox-sensing transcriptional repressor Rex / 0.652
3cin NADMyo-inositol-1-phosphate synthase-related protein / 0.651
1f17 NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.650
2hdh NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.650
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 0.650
3l0d NADGlyceraldehyde-3-phosphate dehydrogenase / 0.650