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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
4ju8 TZD Benzoylformate decarboxylase 4.1.1.7

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 1.143
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 1.121
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 1.121
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 1.119
4qel TZDBenzoylformate decarboxylase 4.1.1.7 1.118
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 1.116
4juf TPPBenzoylformate decarboxylase 4.1.1.7 1.111
4jub TPPBenzoylformate decarboxylase 4.1.1.7 1.109
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 1.106
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 1.095
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 1.091
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 1.090
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 1.072
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 1.059
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 1.051
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 1.034
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 1.033
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 1.030
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 1.020
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.987
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.986
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 0.974
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.957
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.950
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.926
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.894
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.842
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.837
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.837
4cok TPPPyruvate decarboxylase / 0.832
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.805
1pox TPPPyruvate oxidase 1.2.3.3 0.798
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.798
5exd TPPOxalate oxidoreductase subunit alpha / 0.796
5exd TPPOxalate oxidoreductase subunit beta / 0.796
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.780
2c3p 1TPPyruvate synthase / 0.779
5c4i TPPOxalate oxidoreductase subunit alpha / 0.779
5c4i TPPOxalate oxidoreductase subunit beta / 0.779
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.778
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.773
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.769
2uza HTLPyruvate synthase / 0.769
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.768
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.768
2pan TDPGlyoxylate carboligase 4.1.1.47 0.767
3iae D7KBenzaldehyde lyase / 0.764
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.763
2c3y HTLPyruvate synthase / 0.762
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.762
1kek HTLPyruvate synthase / 0.759
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.753
3d7k D7KBenzaldehyde lyase / 0.750
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.748
1y9d TPPPyruvate oxidase 1.2.3.3 0.745
2uz1 TPPBenzaldehyde lyase / 0.739
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.738
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.738
2r8o T5XTransketolase 1 / 0.737
2ez9 TDKPyruvate oxidase 1.2.3.3 0.735
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.731
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.730
5ahk TPPAcetolactate synthase II, large subunit / 0.729
2ezt TDMPyruvate oxidase 1.2.3.3 0.727
3m6l TPPTransketolase / 0.725
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.725
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.724
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 0.724
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.723
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.722
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.721
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.721
2ihv TPPN(2)-(2-carboxyethyl)arginine synthase / 0.720
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
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.718
3ahj TPPProbable phosphoketolase / 0.717
2ag0 TPPBenzaldehyde lyase / 0.716
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.716
4c7x TPPTransketolase / 0.716
1gpu THDTransketolase 1 2.2.1.1 0.715
2r5n TPPTransketolase 1 / 0.714
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.712
1pow TPPPyruvate oxidase 1.2.3.3 0.709
3ahe THDProbable phosphoketolase / 0.709
3upt TPPTransketolase / 0.709
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
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.707
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.705
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.705
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.701
1ay0 TPPTransketolase 1 2.2.1.1 0.699
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.698
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.698
3ahi HTLProbable phosphoketolase / 0.695
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.694
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.692
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
3m7i TPPTransketolase / 0.691
1trk TPPTransketolase 1 2.2.1.1 0.690
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.690
2r8p T6FTransketolase 1 / 0.689
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.688
1tkc M6TTransketolase 1 2.2.1.1 0.686
1tkb N1TTransketolase 1 2.2.1.1 0.681
1ngs TPPTransketolase 1 2.2.1.1 0.680
2iht TPPN(2)-(2-carboxyethyl)arginine synthase / 0.680
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.677
3rim TPPTransketolase 2.2.1.1 0.674
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.669
3exf TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.669
3exf TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.669
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.669
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.667
3ruq ADPChaperonin / 0.663
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.663
1upb TPPN(2)-(2-carboxyethyl)arginine synthase / 0.662
1upc TPPN(2)-(2-carboxyethyl)arginine synthase / 0.662
3m34 TPPTransketolase / 0.662
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.661
1nhh ANPDNA mismatch repair protein MutL / 0.658
3iaf TPPBenzaldehyde lyase / 0.658
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.657
2jib TPPOxalyl-CoA decarboxylase 4.1.1.8 0.656
2py7 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.656
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.656
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.655
1qpb TPPPyruvate decarboxylase isozyme 1 / 0.655
3tgp GNPGTPase HRas / 0.652
2c3u 2TPPyruvate synthase / 0.651
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.651
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.650
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.650