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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
2ez9 TDK Pyruvate oxidase 1.2.3.3

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2ez9 TDKPyruvate oxidase 1.2.3.3 1.228
2ezt TDMPyruvate oxidase 1.2.3.3 1.136
1y9d TPPPyruvate oxidase 1.2.3.3 1.113
1pox TPPPyruvate oxidase 1.2.3.3 1.061
1pow TPPPyruvate oxidase 1.2.3.3 0.983
5ahk TPPAcetolactate synthase II, large subunit / 0.909
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.896
4cok TPPPyruvate decarboxylase / 0.882
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.872
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.843
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.832
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.807
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.804
2pan TDPGlyoxylate carboligase 4.1.1.47 0.794
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.790
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.787
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.783
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.776
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.771
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.771
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.767
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.764
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.763
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.758
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.757
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.752
3iae D7KBenzaldehyde lyase / 0.752
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.751
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.751
4jub TPPBenzoylformate decarboxylase 4.1.1.7 0.748
2c3u 2TPPyruvate synthase / 0.747
2o1x TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.747
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.746
3d7k D7KBenzaldehyde lyase / 0.742
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 0.741
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.740
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.739
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.738
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 0.736
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 0.735
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.734
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.734
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.734
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.734
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.733
2iht TPPN(2)-(2-carboxyethyl)arginine synthase / 0.731
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.729
2uz1 TPPBenzaldehyde lyase / 0.728
1upa TPPN(2)-(2-carboxyethyl)arginine synthase / 0.725
3ahi HTLProbable phosphoketolase / 0.722
2uza HTLPyruvate synthase / 0.719
3ahj TPPProbable phosphoketolase / 0.718
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.717
2r8o T5XTransketolase 1 / 0.716
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.716
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.714
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 0.714
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.713
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 0.712
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 0.712
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.711
2ag0 TPPBenzaldehyde lyase / 0.708
4qel TZDBenzoylformate decarboxylase 4.1.1.7 0.708
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.707
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.706
1kek HTLPyruvate synthase / 0.705
5exd TPPOxalate oxidoreductase subunit alpha / 0.703
5exd TPPOxalate oxidoreductase subunit beta / 0.703
4qpz TPPBenzaldehyde lyase / 0.702
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.700
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.700
1upb TPPN(2)-(2-carboxyethyl)arginine synthase / 0.699
2c3p 1TPPyruvate synthase / 0.699
3m7i TPPTransketolase / 0.697
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 0.696
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.696
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.696
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 0.696
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.695
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.694
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.694
1gpu THDTransketolase 1 2.2.1.1 0.692
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.692
5c4i TPPOxalate oxidoreductase subunit alpha / 0.692
5c4i TPPOxalate oxidoreductase subunit beta / 0.692
1upc TPPN(2)-(2-carboxyethyl)arginine synthase / 0.691
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.691
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.691
2r8p T6FTransketolase 1 / 0.685
2c3y HTLPyruvate synthase / 0.684
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 0.681
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.679
1tkb N1TTransketolase 1 2.2.1.1 0.678
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.678
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.678
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.678
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.676
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.675
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.673
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.669
4ol0 GTPGTP-binding nuclear protein Ran / 0.669
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.668
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.668
1t9a YF4Acetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.666
3ahe THDProbable phosphoketolase / 0.666
2ihv TPPN(2)-(2-carboxyethyl)arginine synthase / 0.665
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.665
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.665
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.665
5itz GTPTubulin alpha-1B chain / 0.663
3m6l TPPTransketolase / 0.662
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.661
2r5n TPPTransketolase 1 / 0.661
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.660
3iaf TPPBenzaldehyde lyase / 0.660
1f5n GNPGuanylate-binding protein 1 / 0.656
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.654
3fvq ATPFe(3+) ions import ATP-binding protein FbpC / 0.654
3upt TPPTransketolase / 0.654
2c3o TPPPyruvate synthase / 0.653
1tkc M6TTransketolase 1 2.2.1.1 0.652
3rim TPPTransketolase 2.2.1.1 0.650