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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
4mq5 TPP Benzoylformate decarboxylase 4.1.1.7

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 1.125
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 1.119
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 1.119
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 1.119
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 1.117
4qel TZDBenzoylformate decarboxylase 4.1.1.7 1.117
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 1.112
4jub TPPBenzoylformate decarboxylase 4.1.1.7 1.110
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 1.106
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 1.105
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 1.096
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 1.091
4juf TPPBenzoylformate decarboxylase 4.1.1.7 1.086
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 1.066
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 1.064
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 1.062
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 1.053
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 1.053
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 1.051
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 1.034
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 1.022
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.994
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 0.991
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.991
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.981
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.961
5c4i TPPOxalate oxidoreductase subunit alpha / 0.844
5c4i TPPOxalate oxidoreductase subunit beta / 0.844
4cok TPPPyruvate decarboxylase / 0.839
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.830
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.830
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.823
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.812
1pox TPPPyruvate oxidase 1.2.3.3 0.802
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.800
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.798
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.791
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.791
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.790
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.788
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.788
2pan TDPGlyoxylate carboligase 4.1.1.47 0.787
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.785
3iae D7KBenzaldehyde lyase / 0.783
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.783
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.783
3d7k D7KBenzaldehyde lyase / 0.779
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.778
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.776
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.774
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.774
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.773
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.772
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.771
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.770
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.762
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.760
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.760
1kek HTLPyruvate synthase / 0.755
1y9d TPPPyruvate oxidase 1.2.3.3 0.755
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.753
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.752
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.752
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.745
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.745
1pow TPPPyruvate oxidase 1.2.3.3 0.743
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.743
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.737
2uza HTLPyruvate synthase / 0.736
2ezt TDMPyruvate oxidase 1.2.3.3 0.735
2c3y HTLPyruvate synthase / 0.727
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.726
3m34 TPPTransketolase / 0.724
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 0.722
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.722
2ez9 TDKPyruvate oxidase 1.2.3.3 0.714
2uz1 TPPBenzaldehyde lyase / 0.714
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.712
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.711
2ag0 TPPBenzaldehyde lyase / 0.708
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.708
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.707
1ay0 TPPTransketolase 1 2.2.1.1 0.705
3ahj TPPProbable phosphoketolase / 0.703
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.702
2r8o T5XTransketolase 1 / 0.702
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.701
5exd TPPOxalate oxidoreductase subunit alpha / 0.700
5exd TPPOxalate oxidoreductase subunit beta / 0.700
1ngs TPPTransketolase 1 2.2.1.1 0.698
3m6l TPPTransketolase / 0.696
2c42 TPPPyruvate synthase / 0.695
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.695
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.694
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.689
1trk TPPTransketolase 1 2.2.1.1 0.689
3rim TPPTransketolase 2.2.1.1 0.689
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.687
1gpu THDTransketolase 1 2.2.1.1 0.686
4c7x TPPTransketolase / 0.685
3m7i TPPTransketolase / 0.683
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.682
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.682
3ahi HTLProbable phosphoketolase / 0.679
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.678
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.677
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.677
5ahk TPPAcetolactate synthase II, large subunit / 0.676
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.673
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.671
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.671
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.669
1tkb N1TTransketolase 1 2.2.1.1 0.669
3upt TPPTransketolase / 0.668
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.668
2ihv TPPN(2)-(2-carboxyethyl)arginine synthase / 0.667
1tkc M6TTransketolase 1 2.2.1.1 0.666
3exf TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.666
3exf TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.666
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.666
2ag1 TPPBenzaldehyde lyase / 0.663
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.663
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.662
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.662
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.660
3ahe THDProbable phosphoketolase / 0.659
1nhh ANPDNA mismatch repair protein MutL / 0.658
2r5n TPPTransketolase 1 / 0.657
2bc9 GNPGuanylate-binding protein 1 / 0.656
2py7 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.656
4qpz TPPBenzaldehyde lyase / 0.656
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.654
1qpb TPPPyruvate decarboxylase isozyme 1 / 0.653
2ji6 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.653
3ruq ADPChaperonin / 0.652
3iaf TPPBenzaldehyde lyase / 0.650