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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
3hwx TPP 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
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.283
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.157
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.126
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.121
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.115
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.110
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.108
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.099
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.033
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.002
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.942
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.938
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.933
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.868
4cok TPPPyruvate decarboxylase / 0.864
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.860
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.832
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.832
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.821
4qel TZDBenzoylformate decarboxylase 4.1.1.7 0.820
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.816
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.816
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 0.812
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.811
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 0.811
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.808
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 0.801
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.799
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.798
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 0.797
5c4i TPPOxalate oxidoreductase subunit alpha / 0.796
5c4i TPPOxalate oxidoreductase subunit beta / 0.796
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 0.795
4jub TPPBenzoylformate decarboxylase 4.1.1.7 0.795
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.794
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 0.787
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.785
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 0.780
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.779
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.775
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 0.773
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.770
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 0.770
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.765
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.759
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.758
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.757
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.756
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.754
1pox TPPPyruvate oxidase 1.2.3.3 0.748
2ez9 TDKPyruvate oxidase 1.2.3.3 0.740
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.738
1y9d TPPPyruvate oxidase 1.2.3.3 0.734
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.731
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.730
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.718
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.717
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.706
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.706
2ezt TDMPyruvate oxidase 1.2.3.3 0.704
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.704
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 0.703
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.701
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.701
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.699
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.699
3exf TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.699
3exf TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.699
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.699
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.699
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.698
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.698
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.698
1pow TPPPyruvate oxidase 1.2.3.3 0.697
2pan TDPGlyoxylate carboligase 4.1.1.47 0.696
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.695
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.695
2c3o TPPPyruvate synthase / 0.691
2pda TPPPyruvate synthase / 0.689
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.689
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.689
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.688
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.688
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.682
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.681
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.681
2ji9 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.681
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.680
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.680
2jib TPPOxalyl-CoA decarboxylase 4.1.1.8 0.678
5exd TPPOxalate oxidoreductase subunit alpha / 0.678
5exd TPPOxalate oxidoreductase subunit beta / 0.678
2c3u 2TPPyruvate synthase / 0.677
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.677
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.677
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.676
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.671
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.671
3m34 TPPTransketolase / 0.670
2c42 TPPPyruvate synthase / 0.669
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.667
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.665
2r8o T5XTransketolase 1 / 0.665
5ahk TPPAcetolactate synthase II, large subunit / 0.662
2c3p 1TPPyruvate synthase / 0.660
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.658
3upt TPPTransketolase / 0.658
1trk TPPTransketolase 1 2.2.1.1 0.653
2c31 TZDOxalyl-CoA decarboxylase 4.1.1.8 0.650