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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
5ej5 TD6 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.575
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.428
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.419
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.418
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.416
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.385
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.226
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.195
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.173
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.035
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.002
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.994
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.958
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.895
4cok TPPPyruvate decarboxylase / 0.869
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.867
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.841
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.831
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.823
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.816
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.808
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.807
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.807
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.804
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.804
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.797
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.791
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.791
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.788
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.788
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.779
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.778
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.774
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.769
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.769
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.767
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.766
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.766
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.759
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.757
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.757
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.755
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.753
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.753
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.749
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.749
2ezt TDMPyruvate oxidase 1.2.3.3 0.748
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.747
1pox TPPPyruvate oxidase 1.2.3.3 0.743
5c4i TPPOxalate oxidoreductase subunit alpha / 0.742
5c4i TPPOxalate oxidoreductase subunit beta / 0.742
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.736
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.736
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 0.734
4qpz TPPBenzaldehyde lyase / 0.733
1y9d TPPPyruvate oxidase 1.2.3.3 0.732
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.732
5ahk TPPAcetolactate synthase II, large subunit / 0.730
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.725
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.722
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.721
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.718
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.717
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.717
2r8o T5XTransketolase 1 / 0.717
2ez9 TDKPyruvate oxidase 1.2.3.3 0.711
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.707
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.705
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.704
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.695
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.694
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.694
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.693
1qpb TPPPyruvate decarboxylase isozyme 1 / 0.692
2pda TPPPyruvate synthase / 0.690
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 0.685
1kek HTLPyruvate synthase / 0.685
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.684
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.681
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.681
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.680
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.674
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.672
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.669
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.669
3rim TPPTransketolase 2.2.1.1 0.668
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 0.668
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.667
2c3o TPPPyruvate synthase / 0.667
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.665
2ji9 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.665
2r8p T6FTransketolase 1 / 0.664
3m34 TPPTransketolase / 0.661
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.660
2c31 TZDOxalyl-CoA decarboxylase 4.1.1.8 0.660
1ay0 TPPTransketolase 1 2.2.1.1 0.658
2o1x TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.658
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 0.657
1tkc M6TTransketolase 1 2.2.1.1 0.655
2pan TDPGlyoxylate carboligase 4.1.1.47 0.654
4bri UNPEctonucleoside triphosphate diphosphohydrolase I / 0.652
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.651
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.651