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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
2q5o TPW Indole-3-pyruvate decarboxylase 4.1.1.74

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 1.210
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 1.198
5ahk TPPAcetolactate synthase II, large subunit / 0.917
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.878
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.878
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 0.869
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.865
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.858
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.852
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.852
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 0.851
1y9d TPPPyruvate oxidase 1.2.3.3 0.850
4jub TPPBenzoylformate decarboxylase 4.1.1.7 0.846
2ez9 TDKPyruvate oxidase 1.2.3.3 0.843
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.837
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 0.837
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.835
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.831
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.831
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.828
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.828
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.827
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.825
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.825
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.825
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.823
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.818
1pox TPPPyruvate oxidase 1.2.3.3 0.817
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.816
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.816
4qel TZDBenzoylformate decarboxylase 4.1.1.7 0.816
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.815
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.814
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.814
3d7k D7KBenzaldehyde lyase / 0.812
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.812
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.806
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.806
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.805
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.794
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 0.787
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.787
5c4i TPPOxalate oxidoreductase subunit alpha / 0.787
5c4i TPPOxalate oxidoreductase subunit beta / 0.787
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.782
2uz1 TPPBenzaldehyde lyase / 0.781
3iae D7KBenzaldehyde lyase / 0.780
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.780
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.778
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.778
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.776
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 0.774
1pow TPPPyruvate oxidase 1.2.3.3 0.773
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.771
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.771
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 0.771
2ag0 TPPBenzaldehyde lyase / 0.770
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.767
4cok TPPPyruvate decarboxylase / 0.766
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.766
1upb TPPN(2)-(2-carboxyethyl)arginine synthase / 0.764
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.764
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.763
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.760
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.760
3ahj TPPProbable phosphoketolase / 0.760
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.759
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.758
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 0.758
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.756
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 0.751
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.750
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.750
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 0.750
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.748
2ag1 TPPBenzaldehyde lyase / 0.747
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.745
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.744
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.744
2ihv TPPN(2)-(2-carboxyethyl)arginine synthase / 0.743
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.743
2ezt TDMPyruvate oxidase 1.2.3.3 0.739
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.739
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.739
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.739
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.736
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.732
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.731
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.724
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.722
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.722
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.722
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.721
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.720
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.720
1gpu THDTransketolase 1 2.2.1.1 0.717
5exd TPPOxalate oxidoreductase subunit alpha / 0.716
5exd TPPOxalate oxidoreductase subunit beta / 0.716
1upa TPPN(2)-(2-carboxyethyl)arginine synthase / 0.714
3upt TPPTransketolase / 0.714
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.713
2r8o T5XTransketolase 1 / 0.713
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.712
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.712
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.707
2o1x TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.703
1kek HTLPyruvate synthase / 0.702
1ay0 TPPTransketolase 1 2.2.1.1 0.700
1tkc M6TTransketolase 1 2.2.1.1 0.700
3m34 TPPTransketolase / 0.696
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.692
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.692
3m6l TPPTransketolase / 0.688
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.684
1ngs TPPTransketolase 1 2.2.1.1 0.682
1trk TPPTransketolase 1 2.2.1.1 0.681
2r8p T6FTransketolase 1 / 0.681
2iht TPPN(2)-(2-carboxyethyl)arginine synthase / 0.678
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 0.677
2r5n TPPTransketolase 1 / 0.677
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.674
1t9a YF4Acetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.673
2pda TPPPyruvate synthase / 0.673
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.667
3ahi HTLProbable phosphoketolase / 0.665
2pan TDPGlyoxylate carboligase 4.1.1.47 0.663
3rim TPPTransketolase 2.2.1.1 0.663
3ahe THDProbable phosphoketolase / 0.659
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.657
4qpz TPPBenzaldehyde lyase / 0.656
2c31 TZDOxalyl-CoA decarboxylase 4.1.1.8 0.655
4c7x TPPTransketolase / 0.653
1upc TPPN(2)-(2-carboxyethyl)arginine synthase / 0.651
3fvq ATPFe(3+) ions import ATP-binding protein FbpC / 0.650