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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
1tkc M6T Transketolase 1 2.2.1.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1tkc M6TTransketolase 1 2.2.1.1 1.171
3upt TPPTransketolase / 0.928
1trk TPPTransketolase 1 2.2.1.1 0.894
1ngs TPPTransketolase 1 2.2.1.1 0.885
2r8p T6FTransketolase 1 / 0.884
2r8o T5XTransketolase 1 / 0.862
3m7i TPPTransketolase / 0.843
3rim TPPTransketolase 2.2.1.1 0.839
1gpu THDTransketolase 1 2.2.1.1 0.824
4c7x TPPTransketolase / 0.821
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.813
1tkb N1TTransketolase 1 2.2.1.1 0.812
1ay0 TPPTransketolase 1 2.2.1.1 0.796
2r5n TPPTransketolase 1 / 0.789
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.783
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.775
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.760
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.760
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.756
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.756
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.756
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.748
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.742
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.742
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.737
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.737
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.735
3m34 TPPTransketolase / 0.734
1tka N3TTransketolase 1 2.2.1.1 0.732
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.725
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.724
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.724
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.722
3m6l TPPTransketolase / 0.722
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.722
5ahk TPPAcetolactate synthase II, large subunit / 0.715
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.713
4cok TPPPyruvate decarboxylase / 0.712
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.711
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.710
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.709
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.708
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.702
1y9d TPPPyruvate oxidase 1.2.3.3 0.700
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.700
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.699
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.697
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.697
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.697
3ahj TPPProbable phosphoketolase / 0.694
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.693
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.692
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.692
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.692
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.689
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.689
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.688
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.688
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 0.686
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.683
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.683
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.683
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.682
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.681
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.680
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.680
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.680
3exf TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.679
3exf TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.679
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.676
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.669
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 0.669
4qel TZDBenzoylformate decarboxylase 4.1.1.7 0.669
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 0.669
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 0.668
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.668
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.668
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.667
2uz1 TPPBenzaldehyde lyase / 0.667
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.666
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 0.666
3ahe THDProbable phosphoketolase / 0.665
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.665
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.665
4jub TPPBenzoylformate decarboxylase 4.1.1.7 0.665
2ezt TDMPyruvate oxidase 1.2.3.3 0.663
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.663
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.663
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.662
2c31 TZDOxalyl-CoA decarboxylase 4.1.1.8 0.660
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.660
1pox TPPPyruvate oxidase 1.2.3.3 0.659
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.657
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 0.656
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.655
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.655
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.653
3d7k D7KBenzaldehyde lyase / 0.653
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.653
2ez9 TDKPyruvate oxidase 1.2.3.3 0.652
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.652