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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
1dc6 NAD Glyceraldehyde-3-phosphate dehydrogenase A

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1dc6 NADGlyceraldehyde-3-phosphate dehydrogenase A / 1.002
1vsv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.891
1u8f NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.874
2vyv NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.870
3hja NADGlyceraldehyde-3-phosphate dehydrogenase / 0.865
4o59 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.865
5c7o NADGlyceraldehyde-3-phosphate dehydrogenase, testis-specific 1.2.1.12 0.863
4lsm NADGlyceraldehyde-3-phosphate dehydrogenase / 0.862
1gad NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.860
3pym NADGlyceraldehyde-3-phosphate dehydrogenase 3 1.2.1.12 0.859
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.857
1znq NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.848
1ywg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.842
3cps NADGlyceraldehyde-3-phosphate dehydrogenase / 0.842
4dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.832
1hdg NADGlyceraldehyde-3-phosphate dehydrogenase / 0.827
3zcx NADGlyceraldehyde-3-phosphate dehydrogenase / 0.827
4o63 NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.826
1nqo NADGlyceraldehyde-3-phosphate dehydrogenase / 0.820
3cif NADGlyceraldehyde-3-phosphate dehydrogenase / 0.820
3ids NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.816
1nq5 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.815
2g82 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.814
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.808
3doc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.808
4k9d NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.803
1gd1 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.801
4boy NADGlyceraldehyde-3-phosphate dehydrogenase / 0.798
3lvf NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.797
2b4r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.796
3cmc NADGlyceraldehyde-3-phosphate dehydrogenase / 0.794
3zdf NADGlyceraldehyde-3-phosphate dehydrogenase / 0.794
1npt NADGlyceraldehyde-3-phosphate dehydrogenase / 0.791
1dss NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.790
4z0h NADGlyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic 1.2.1.12 0.788
1a7k NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.786
3dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.784
3k2b NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.784
1cer NADGlyceraldehyde-3-phosphate dehydrogenase / 0.782
3b1j NADGlyceraldehyde-3-phosphate dehydrogenase / 0.781
1rm3 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.779
3qv1 NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic 1.2.1.13 0.779
1gyp NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.778
1szj NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.778
3dmt NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.777
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.776
3l4s NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.775
3v1y NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.772
1j0x NADGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.771
3e5r NADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic 1.2.1.12 0.769
2dbv NDPGlyceraldehyde-3-phosphate dehydrogenase / 0.768
2ep7 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.756
3ksd NADGlyceraldehyde-3-phosphate dehydrogenase 1 / 0.753
1nbo NADGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.750
2d2i NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.748
1dbv NADGlyceraldehyde-3-phosphate dehydrogenase / 0.745
1m75 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.722
1rm4 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.721
1il0 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.712
1lsj NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.712
3had NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.712
1ihx SNDGlyceraldehyde-3-phosphate dehydrogenase 1.2.1.12 0.704
1qxs NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.704
1vc2 NADGlyceraldehyde-3-phosphate dehydrogenase / 0.702
1f17 NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.695
1gl3 NDPAspartate-semialdehyde dehydrogenase / 0.695
3ggp NADPrephenate dehydrogenase / 0.694
3f3s NADLambda-crystallin homolog / 0.693
3hwr NDP2-dehydropantoate 2-reductase / 0.689
2i9p NAD3-hydroxyisobutyrate dehydrogenase, mitochondrial 1.1.1.31 0.688
3l0d NADGlyceraldehyde-3-phosphate dehydrogenase / 0.687
1m76 NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.682
1sc6 NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.678
3ket NADRedox-sensing transcriptional repressor Rex / 0.678
1gae NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.677
1nvm NADAcetaldehyde dehydrogenase 1.2.1.10 0.677
1jn0 NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.675
3uko NADAlcohol dehydrogenase class-3 / 0.674
1ml3 NADGlyceraldehyde-3-phosphate dehydrogenase, glycosomal 1.2.1.12 0.673
4plp NADHomospermidine synthase 2.5.1.44 0.673
4xq9 NADHomospermidine synthase 2.5.1.44 0.673
1i36 NAPConserved protein / 0.672
2pkr NDPGlyceraldehyde-3-phosphate dehydrogenase A, chloroplastic 1.2.1.13 0.672
4j43 NADUncharacterized protein / 0.672
4jji NADAlcohol dehydrogenase class-3 / 0.671
2g5c NADPrephenate dehydrogenase / 0.670
4om8 NAD3-hydroxybutyryl-coA dehydrogenase / 0.670
4dl9 NADS-(hydroxymethyl)glutathione dehydrogenase / 0.669
4xrg NADHomospermidine synthase 2.5.1.44 0.669
4j49 NAIUncharacterized protein / 0.668
4xqc NADHomospermidine synthase 2.5.1.44 0.668
1guy NADMalate dehydrogenase / 0.667
1pjc NADAlanine dehydrogenase / 0.667
3oet NADErythronate-4-phosphate dehydrogenase / 0.666
1f0y NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.661
3pdu NAPGlyoxalate/3-oxopropanoate/4-oxobutanoate reductase / 0.661
2pv7 NADT-protein 1.3.1.12 0.660
2vhx NADAlanine dehydrogenase 1.4.1.1 0.660
1psd NADD-3-phosphoglycerate dehydrogenase 1.1.1.95 0.658
2q3e NAIUDP-glucose 6-dehydrogenase 1.1.1.22 0.658
1e3e NAIAlcohol dehydrogenase 4 1.1.1.1 0.657
1lld NADL-lactate dehydrogenase 2 1.1.1.27 0.657
1f8f NADBenzyl alcohol dehydrogenase / 0.656
3anm NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.656
3gvi ADPMalate dehydrogenase / 0.654
4jk3 NADUncharacterized protein / 0.654
4j4b NAIUncharacterized protein / 0.653
2cvz NDP3-hydroxyisobutyrate dehydrogenase / 0.652
3hdh NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial 1.1.1.35 0.652
2jcv NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase / 0.651
1q0q NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase 1.1.1.267 0.650
2yy7 NADL-threonine dehydrogenase / 0.650