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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
1gq2 NAP NADP-dependent malic enzyme 1.1.1.40

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1gq2 NAPNADP-dependent malic enzyme 1.1.1.40 1.236
1do8 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.907
1efl NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.906
1pj3 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.869
1efk NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.862
1pj2 NAINAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.824
4xcv NDPProbable hydroxyacid dehydrogenase protein / 0.747
4k28 NADShikimate dehydrogenase family protein / 0.740
4nu6 NADPhosphonate dehydrogenase 1.20.1.1 0.737
3ngl NAPBifunctional protein FolD / 0.734
1qr6 NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.711
3ing NDPHomoserine dehydrogenase related protein / 0.708
4xb1 NDP319aa long hypothetical homoserine dehydrogenase / 0.702
1llq NADNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.701
4nu5 NADPhosphonate dehydrogenase 1.20.1.1 0.700
1gz4 ATPNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.697
1pj4 ATPNAD-dependent malic enzyme, mitochondrial 1.1.1.38 0.692
1zh8 NAPUncharacterized protein / 0.690
4jbi NDPAlcohol dehydrogenase (Zinc) / 0.690
3tnl NADShikimate dehydrogenase (NADP(+)) / 0.686
2hk9 NAPShikimate dehydrogenase (NADP(+)) / 0.685
5cdg NAJAlcohol dehydrogenase E chain 1.1.1.1 0.684
2q0l NAPThioredoxin reductase 1.8.1.9 0.683
2vhx NADAlanine dehydrogenase 1.4.1.1 0.683
5kj1 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.683
2vq3 NAPMetalloreductase STEAP3 / 0.680
4ccq NAPThioredoxin reductase / 0.680
1vi2 NADQuinate/shikimate dehydrogenase / 0.679
1ofg NDPGlucose--fructose oxidoreductase 1.1.99.28 0.674
1npd NADQuinate/shikimate dehydrogenase / 0.673
4e5m NAPPhosphonate dehydrogenase 1.20.1.1 0.673
4nfs NAJAlcohol dehydrogenase E chain 1.1.1.1 0.672
4dwv NAJAlcohol dehydrogenase E chain 1.1.1.1 0.671
1i36 NAPConserved protein / 0.670
3oq6 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.670
2vhz NAIAlanine dehydrogenase 1.4.1.1 0.669
4c4o NADSADH / 0.669
4ng5 NAJAlcohol dehydrogenase E chain 1.1.1.1 0.669
1pjc NADAlanine dehydrogenase / 0.668
3x2f NAIAdenosylhomocysteinase / 0.668
5cds NAJAlcohol dehydrogenase E chain 1.1.1.1 0.668
1yl7 NAI4-hydroxy-tetrahydrodipicolinate reductase / 0.667
4gcm NAPThioredoxin reductase 1.8.1.9 0.667
5kcp NAJAlcohol dehydrogenase E chain 1.1.1.1 0.667
5kcz NAJAlcohol dehydrogenase E chain 1.1.1.1 0.666
3h3j NADL-lactate dehydrogenase 1 1.1.1.27 0.665
3jv7 NADSecondary alcohol dehydrogenase / 0.664
4a5l NDPThioredoxin reductase / 0.663
2dt5 NADRedox-sensing transcriptional repressor Rex / 0.660
1hld NADAlcohol dehydrogenase E chain 1.1.1.1 0.658
3phi NDPShikimate dehydrogenase (NADP(+)) / 0.658
4e5k NADPhosphonate dehydrogenase 1.20.1.1 0.658
4gae NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.658
4z0p NDPNAD-dependent dehydrogenase / 0.656
1p0f NAPNADP-dependent alcohol dehydrogenase 1.1.1.2 0.655
1cf2 NAPGlyceraldehyde-3-phosphate dehydrogenase / 0.654
2ekl NADD-3-phosphoglycerate dehydrogenase / 0.654
4w6z 8IDAlcohol dehydrogenase 1 1.1.1.1 0.654
5cdt NAJAlcohol dehydrogenase E chain 1.1.1.1 0.654
3lzx NAPFerredoxin--NADP reductase 2 1.18.1.2 0.653
1hdz NADAlcohol dehydrogenase 1B 1.1.1.1 0.652
5kje NAJAlcohol dehydrogenase E chain 1.1.1.1 0.652
4dxh NAJAlcohol dehydrogenase E chain 1.1.1.1 0.651
3au8 NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic 1.1.1.267 0.650