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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
1kek HTL Pyruvate synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1kek HTLPyruvate synthase / 1.181
2c3y HTLPyruvate synthase / 1.149
2uza HTLPyruvate synthase / 1.136
2c3p 1TPPyruvate synthase / 1.114
2c42 TPPPyruvate synthase / 0.915
2c3u 2TPPyruvate synthase / 0.883
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 0.785
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.777
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 0.775
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.770
1pox TPPPyruvate oxidase 1.2.3.3 0.770
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.770
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.770
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.770
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.770
2pda TPPPyruvate synthase / 0.769
5exd TPPOxalate oxidoreductase subunit alpha / 0.765
5exd TPPOxalate oxidoreductase subunit beta / 0.765
1y9d TPPPyruvate oxidase 1.2.3.3 0.762
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 0.759
4qel TZDBenzoylformate decarboxylase 4.1.1.7 0.759
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.755
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 0.755
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 0.754
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 0.754
3d7k D7KBenzaldehyde lyase / 0.753
2ag0 TPPBenzaldehyde lyase / 0.745
2c3o TPPPyruvate synthase / 0.744
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.740
5ahk TPPAcetolactate synthase II, large subunit / 0.740
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.739
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.736
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.735
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.733
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.733
2pan TDPGlyoxylate carboligase 4.1.1.47 0.733
4cok TPPPyruvate decarboxylase / 0.728
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.724
5c4i TPPOxalate oxidoreductase subunit alpha / 0.724
5c4i TPPOxalate oxidoreductase subunit beta / 0.724
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 0.723
3iae D7KBenzaldehyde lyase / 0.718
4jub TPPBenzoylformate decarboxylase 4.1.1.7 0.718
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.715
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.715
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.711
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.711
1pow TPPPyruvate oxidase 1.2.3.3 0.710
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.707
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.707
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.706
2ez9 TDKPyruvate oxidase 1.2.3.3 0.705
2ezt TDMPyruvate oxidase 1.2.3.3 0.704
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.702
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.695
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.693
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.690
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.689
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.685
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.684
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.683
2ag1 TPPBenzaldehyde lyase / 0.682
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.682
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.680
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.679
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.677
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.670
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.667
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.662
2iht TPPN(2)-(2-carboxyethyl)arginine synthase / 0.658
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.657
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.654
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.653
3ahe THDProbable phosphoketolase / 0.653
1upa TPPN(2)-(2-carboxyethyl)arginine synthase / 0.651
1upb TPPN(2)-(2-carboxyethyl)arginine synthase / 0.650