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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
2pda TPP Pyruvate synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2pda TPPPyruvate synthase / 1.215
2c42 TPPPyruvate synthase / 0.836
2uza HTLPyruvate synthase / 0.821
2c3u 2TPPyruvate synthase / 0.800
2c3o TPPPyruvate synthase / 0.774
1kek HTLPyruvate synthase / 0.769
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.758
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.752
2c3y HTLPyruvate synthase / 0.728
2c3p 1TPPyruvate synthase / 0.727
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.715
1qpb TPPPyruvate decarboxylase isozyme 1 / 0.711
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.710
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.699
4cok TPPPyruvate decarboxylase / 0.699
5c4i TPPOxalate oxidoreductase subunit alpha / 0.697
5c4i TPPOxalate oxidoreductase subunit beta / 0.697
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.691
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.690
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.689
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.687
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.686
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.683
1y9d TPPPyruvate oxidase 1.2.3.3 0.679
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.678
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.678
2c31 TZDOxalyl-CoA decarboxylase 4.1.1.8 0.676
1pox TPPPyruvate oxidase 1.2.3.3 0.675
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.675
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.673
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.672
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.671
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.671
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.670
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 0.666
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.665
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.664
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.663
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.662
2ji6 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.658
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.657
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.657
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.657
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.656
5ahk TPPAcetolactate synthase II, large subunit / 0.652
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.651
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.650
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.650
3d7k D7KBenzaldehyde lyase / 0.650