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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
5ej6 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
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.517
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.415
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.413
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.399
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.385
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.384
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.227
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.191
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.177
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.115
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.050
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.996
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.959
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.869
4cok TPPPyruvate decarboxylase / 0.861
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.858
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.837
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.829
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.807
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.800
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.796
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.793
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.792
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.792
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.788
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.786
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.784
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 0.781
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.781
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.781
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.778
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.773
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.767
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.766
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.764
4jub TPPBenzoylformate decarboxylase 4.1.1.7 0.764
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 0.760
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.757
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.757
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.755
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.755
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.755
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.755
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.753
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.751
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.750
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.750
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.742
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.742
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.740
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.740
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.737
1pox TPPPyruvate oxidase 1.2.3.3 0.735
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 0.734
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.733
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.732
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.730
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.730
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.726
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.726
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.725
1y9d TPPPyruvate oxidase 1.2.3.3 0.724
2uz1 TPPBenzaldehyde lyase / 0.722
2ag0 TPPBenzaldehyde lyase / 0.720
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.717
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 0.716
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.715
3d7k D7KBenzaldehyde lyase / 0.712
2c3o TPPPyruvate synthase / 0.709
2ji9 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.709
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.709
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.708
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 0.707
2ezt TDMPyruvate oxidase 1.2.3.3 0.706
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.705
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.705
2jib TPPOxalyl-CoA decarboxylase 4.1.1.8 0.703
3iae D7KBenzaldehyde lyase / 0.703
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 0.703
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 0.703
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.702
2pan TDPGlyoxylate carboligase 4.1.1.47 0.700
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.700
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.695
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.694
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.693
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.692
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.692
5ahk TPPAcetolactate synthase II, large subunit / 0.692
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.690
1tkc M6TTransketolase 1 2.2.1.1 0.688
2ag1 TPPBenzaldehyde lyase / 0.686
1qpb TPPPyruvate decarboxylase isozyme 1 / 0.685
2r8o T5XTransketolase 1 / 0.684
1pow TPPPyruvate oxidase 1.2.3.3 0.683
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.683
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.681
2ez9 TDKPyruvate oxidase 1.2.3.3 0.678
2pda TPPPyruvate synthase / 0.675
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.673
2c31 TZDOxalyl-CoA decarboxylase 4.1.1.8 0.672
3rim TPPTransketolase 2.2.1.1 0.672
1ngs TPPTransketolase 1 2.2.1.1 0.671
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.670
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.670
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.669
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 0.667
1gpu THDTransketolase 1 2.2.1.1 0.665
3upt TPPTransketolase / 0.665
5c4i TPPOxalate oxidoreductase subunit alpha / 0.665
5c4i TPPOxalate oxidoreductase subunit beta / 0.665
1trk TPPTransketolase 1 2.2.1.1 0.660
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 0.657
4qel TZDBenzoylformate decarboxylase 4.1.1.7 0.656
1ay0 TPPTransketolase 1 2.2.1.1 0.654
1toj HCIAspartate aminotransferase 2.6.1.1 0.651