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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
4ju9 TZD Benzoylformate decarboxylase 4.1.1.7

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 1.147
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 1.143
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 1.121
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 1.119
4qel TZDBenzoylformate decarboxylase 4.1.1.7 1.119
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 1.116
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 1.113
4jub TPPBenzoylformate decarboxylase 4.1.1.7 1.110
4juf TPPBenzoylformate decarboxylase 4.1.1.7 1.107
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 1.105
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 1.094
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 1.089
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 1.085
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 1.067
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 1.062
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 1.060
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 1.052
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 1.034
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 1.031
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 1.024
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 1.021
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 1.012
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.999
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.985
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.958
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.955
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.851
4cok TPPPyruvate decarboxylase / 0.845
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.842
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.825
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.808
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.802
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.801
5c4i TPPOxalate oxidoreductase subunit alpha / 0.793
5c4i TPPOxalate oxidoreductase subunit beta / 0.793
1kek HTLPyruvate synthase / 0.785
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.785
3iae D7KBenzaldehyde lyase / 0.784
3d7k D7KBenzaldehyde lyase / 0.782
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.778
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.778
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.776
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.774
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.774
2pan TDPGlyoxylate carboligase 4.1.1.47 0.774
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.770
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.766
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.765
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.758
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.755
1y9d TPPPyruvate oxidase 1.2.3.3 0.753
5exd TPPOxalate oxidoreductase subunit alpha / 0.753
5exd TPPOxalate oxidoreductase subunit beta / 0.753
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.750
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.746
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.746
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.743
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.742
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.741
2uz1 TPPBenzaldehyde lyase / 0.741
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.740
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.737
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.736
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.736
2ezt TDMPyruvate oxidase 1.2.3.3 0.728
1pow TPPPyruvate oxidase 1.2.3.3 0.718
4c7x TPPTransketolase / 0.717
3m34 TPPTransketolase / 0.716
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.715
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.715
5ahk TPPAcetolactate synthase II, large subunit / 0.715
1ngs TPPTransketolase 1 2.2.1.1 0.712
1pox TPPPyruvate oxidase 1.2.3.3 0.712
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.710
2c3p 1TPPyruvate synthase / 0.708
3iaf TPPBenzaldehyde lyase / 0.707
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.703
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.703
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.703
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.701
2r8o T5XTransketolase 1 / 0.701
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 0.697
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.693
1gpu THDTransketolase 1 2.2.1.1 0.691
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.691
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.691
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.691
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.691
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.690
3ahe THDProbable phosphoketolase / 0.690
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.688
1trk TPPTransketolase 1 2.2.1.1 0.688
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.688
1tkb N1TTransketolase 1 2.2.1.1 0.686
3rim TPPTransketolase 2.2.1.1 0.686
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.684
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.684
2uza HTLPyruvate synthase / 0.683
3upt TPPTransketolase / 0.683
3m6l TPPTransketolase / 0.682
2ez9 TDKPyruvate oxidase 1.2.3.3 0.681
2c42 TPPPyruvate synthase / 0.680
3ahi HTLProbable phosphoketolase / 0.676
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.673
2r8p T6FTransketolase 1 / 0.671
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.670
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.669
1tkc M6TTransketolase 1 2.2.1.1 0.669
2ag1 TPPBenzaldehyde lyase / 0.669
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.668
1i5b ANPChemotaxis protein CheA 2.7.13.3 0.666
2c3u 2TPPyruvate synthase / 0.664
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.664
3ruq ADPChaperonin / 0.664
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.663
3m7i TPPTransketolase / 0.663
2r5n TPPTransketolase 1 / 0.660
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.660
4mkf AP5Adenylate kinase / 0.660
1nhh ANPDNA mismatch repair protein MutL / 0.658
2c3o TPPPyruvate synthase / 0.658
2ihv TPPN(2)-(2-carboxyethyl)arginine synthase / 0.658
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.658
2py7 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.657
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.657
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.657
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.652
4qpz TPPBenzaldehyde lyase / 0.651