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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
5dgt TZD Benzoylformate decarboxylase 4.1.1.7

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 1.164
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 1.143
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 1.132
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 1.121
4qel TZDBenzoylformate decarboxylase 4.1.1.7 1.120
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 1.119
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 1.118
4jub TPPBenzoylformate decarboxylase 4.1.1.7 1.109
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 1.107
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 1.106
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 1.090
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 1.089
4juf TPPBenzoylformate decarboxylase 4.1.1.7 1.079
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 1.071
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 1.055
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 1.054
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 1.053
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 1.026
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 1.024
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 1.000
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.970
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.969
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.968
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.943
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.869
4cok TPPPyruvate decarboxylase / 0.868
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.842
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.842
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.814
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.811
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.809
2pan TDPGlyoxylate carboligase 4.1.1.47 0.789
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.785
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.777
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.777
1kek HTLPyruvate synthase / 0.775
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.773
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.773
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.769
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.769
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.768
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.767
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.765
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.764
2uza HTLPyruvate synthase / 0.764
1y9d TPPPyruvate oxidase 1.2.3.3 0.761
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.761
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.760
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.757
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.757
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.757
3iae D7KBenzaldehyde lyase / 0.757
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.756
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.754
1pox TPPPyruvate oxidase 1.2.3.3 0.753
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.748
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.748
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
3d7k D7KBenzaldehyde lyase / 0.745
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.743
2uz1 TPPBenzaldehyde lyase / 0.742
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.739
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.739
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 0.735
5ahk TPPAcetolactate synthase II, large subunit / 0.735
5exd TPPOxalate oxidoreductase subunit alpha / 0.735
5exd TPPOxalate oxidoreductase subunit beta / 0.735
2ezt TDMPyruvate oxidase 1.2.3.3 0.734
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.731
1pow TPPPyruvate oxidase 1.2.3.3 0.728
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.726
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.723
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.718
4c7x TPPTransketolase / 0.716
2c3p 1TPPyruvate synthase / 0.715
2ez9 TDKPyruvate oxidase 1.2.3.3 0.712
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.711
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.708
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.708
3m6l TPPTransketolase / 0.707
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.707
1ay0 TPPTransketolase 1 2.2.1.1 0.706
3m34 TPPTransketolase / 0.704
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.702
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.702
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.701
2r8o T5XTransketolase 1 / 0.700
3upt TPPTransketolase / 0.697
3ahe THDProbable phosphoketolase / 0.695
1gpu THDTransketolase 1 2.2.1.1 0.691
2ji6 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.691
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.690
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.690
1ngs TPPTransketolase 1 2.2.1.1 0.688
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.688
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.688
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.687
3rim TPPTransketolase 2.2.1.1 0.685
5c4i TPPOxalate oxidoreductase subunit alpha / 0.685
5c4i TPPOxalate oxidoreductase subunit beta / 0.685
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.684
2r8p T6FTransketolase 1 / 0.683
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.681
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.680
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.677
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.675
3ahj TPPProbable phosphoketolase / 0.675
3ahi HTLProbable phosphoketolase / 0.674
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.672
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
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.670
1tkc M6TTransketolase 1 2.2.1.1 0.669
2c42 TPPPyruvate synthase / 0.669
2r5n TPPTransketolase 1 / 0.668
3m7i TPPTransketolase / 0.665
2c3y HTLPyruvate synthase / 0.662
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.662
2c3o TPPPyruvate synthase / 0.659
1nhh ANPDNA mismatch repair protein MutL / 0.657
2ihv TPPN(2)-(2-carboxyethyl)arginine synthase / 0.656
2ag1 TPPBenzaldehyde lyase / 0.654
2cls GTPRho-related GTP-binding protein Rho6 / 0.651
3tgp GNPGTPase HRas / 0.650