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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
2fwn TDP Benzoylformate decarboxylase 4.1.1.7

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 1.171
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 1.137
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 1.132
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 1.127
4qel TZDBenzoylformate decarboxylase 4.1.1.7 1.115
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 1.113
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 1.112
4juf TPPBenzoylformate decarboxylase 4.1.1.7 1.102
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 1.095
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 1.085
4jub TPPBenzoylformate decarboxylase 4.1.1.7 1.084
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 1.082
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 1.082
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 1.073
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 1.065
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 1.060
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 1.052
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 1.051
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 1.045
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 1.043
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 1.023
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.977
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.976
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.959
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.952
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.946
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.827
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.827
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.816
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.816
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.815
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.814
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.804
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.796
5c4i TPPOxalate oxidoreductase subunit alpha / 0.796
5c4i TPPOxalate oxidoreductase subunit beta / 0.796
4cok TPPPyruvate decarboxylase / 0.789
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.786
3iae D7KBenzaldehyde lyase / 0.785
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.785
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.783
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.777
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
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.773
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.773
2pan TDPGlyoxylate carboligase 4.1.1.47 0.771
1kek HTLPyruvate synthase / 0.770
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.770
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.769
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.769
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.769
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.766
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.761
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.759
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.759
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.754
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.753
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.751
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.750
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.750
1pox TPPPyruvate oxidase 1.2.3.3 0.750
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.749
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.749
1y9d TPPPyruvate oxidase 1.2.3.3 0.749
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.742
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.740
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.739
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.739
2uza HTLPyruvate synthase / 0.738
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 0.736
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.734
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.733
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.733
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.733
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.733
1pow TPPPyruvate oxidase 1.2.3.3 0.728
2ezt TDMPyruvate oxidase 1.2.3.3 0.725
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.724
3d7k D7KBenzaldehyde lyase / 0.724
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.718
2ez9 TDKPyruvate oxidase 1.2.3.3 0.713
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.713
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.708
2uz1 TPPBenzaldehyde lyase / 0.708
3m34 TPPTransketolase / 0.707
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.705
3upt TPPTransketolase / 0.705
2ji6 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.704
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.700
3rim TPPTransketolase 2.2.1.1 0.700
5ahk TPPAcetolactate synthase II, large subunit / 0.700
1ay0 TPPTransketolase 1 2.2.1.1 0.699
4c7x TPPTransketolase / 0.698
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.695
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.695
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.695
2r8o T5XTransketolase 1 / 0.694
3ahi HTLProbable phosphoketolase / 0.694
3ahj TPPProbable phosphoketolase / 0.693
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.692
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.689
1ngs TPPTransketolase 1 2.2.1.1 0.685
3ahe THDProbable phosphoketolase / 0.685
3m6l TPPTransketolase / 0.683
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.683
1trk TPPTransketolase 1 2.2.1.1 0.682
2c42 TPPPyruvate synthase / 0.680
1gpu THDTransketolase 1 2.2.1.1 0.678
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.672
2ihv TPPN(2)-(2-carboxyethyl)arginine synthase / 0.672
3m7i TPPTransketolase / 0.671
5exd TPPOxalate oxidoreductase subunit alpha / 0.670
5exd TPPOxalate oxidoreductase subunit beta / 0.670
2ag1 TPPBenzaldehyde lyase / 0.668
1tkc M6TTransketolase 1 2.2.1.1 0.666
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.666
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.664
2r5n TPPTransketolase 1 / 0.664
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.664
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.663
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.662
1tkb N1TTransketolase 1 2.2.1.1 0.658
1nhh ANPDNA mismatch repair protein MutL / 0.657
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.655
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.655
4qpz TPPBenzaldehyde lyase / 0.654
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.653
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.653
3iaf TPPBenzaldehyde lyase / 0.653
2c3p 1TPPyruvate synthase / 0.651
2pda TPPPyruvate synthase / 0.650