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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
4z0h NAD Glyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4z0h NADGlyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12 0.913
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.870
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.864
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.854
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.841
1ywg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.833
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.833
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.832
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.830
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.830
1znq NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.823
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.821
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.818
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.818
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.809
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.801
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.799
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.798
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.793
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.789
1dc6 NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.788
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.788
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.782
3ksd NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.782
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.780
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.777
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.774
1a7k NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.771
1gyp NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.771
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.769
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.769
3e5r NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.767
1nqo NADGlyceraldehyde-3-phosphate dehydrogenase / 0.766
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.766
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.764
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.763
3zcx NADGlyceraldehyde-3-phosphate dehydrogenase / 0.757
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.756
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.752
2d2i NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.752
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.752
1rm3 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.750
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.745
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.745
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.739
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.738
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.728
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.727
1j0x NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.721
1gae NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.713
2dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.710
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.710
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.710
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.709
1ihx SNDGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.706
3ikt NADRedox-sensing transcriptional repressor Rex / 0.699
1qxs NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.695
1jn0 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.694
3b20 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.692
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.687
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.685
1rm4 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.684
3f3s NADLambda-crystallin homolog / 0.684
3hdh NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.682
3nt2 NAIInositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase 1.1.1.18 0.679
1rm5 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.676
2o4c NADErythronate-4-phosphate dehydrogenase / 0.674
3tri NAPPyrroline-5-carboxylate reductase / 0.674
3gvi ADPMalate dehydrogenase / 0.673
3ggp NADPrephenate dehydrogenase / 0.671
3qvw NADMyo-inositol-1-phosphate synthase (Ino1) / 0.670
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.665
3pqf NADL-lactate dehydrogenase 1.1.1.27 0.664
1f17 NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.662
2pv7 NADT-protein 1.3.1.12 0.662
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.661
3pvz NADUDP-N-acetylglucosamine 4,6-dehydratase / 0.660
2g5c NADPrephenate dehydrogenase / 0.659
5eio NAP[LysW]-L-2-aminoadipate 6-phosphate reductase / 0.659
2pkr NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.657
3ket NADRedox-sensing transcriptional repressor Rex / 0.656
3qw2 NADMyo-inositol-1-phosphate synthase (Ino1) / 0.656
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.655
3g5s FADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO / 0.654
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.653
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.652
3m2t NADProbable dehydrogenase / 0.652
4k28 NADShikimate dehydrogenase family protein / 0.652
1dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.651
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.651
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.650