Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
2g28 TDK Pyruvate dehydrogenase E1 component 1.2.4.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 1.339
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 1.183
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 1.015
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.990
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.976
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.952
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.906
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.892
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.860
3ahi HTLProbable phosphoketolase / 0.840
3ahe THDProbable phosphoketolase / 0.826
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.823
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.823
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.814
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.814
3ahj TPPProbable phosphoketolase / 0.805
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.795
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.794
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.794
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.790
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.790
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.789
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.789
5ahk TPPAcetolactate synthase II, large subunit / 0.785
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.781
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.774
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.772
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.770
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.770
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.763
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.760
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 0.760
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.759
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.759
2r8o T5XTransketolase 1 / 0.759
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.759
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.757
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.756
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.756
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.752
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.751
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.751
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.748
4cok TPPPyruvate decarboxylase / 0.747
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.746
3d7k D7KBenzaldehyde lyase / 0.744
3exf TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.744
3exf TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.744
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.744
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.743
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.743
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.743
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.739
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.739
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.739
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.738
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.737
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.733
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.732
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.730
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.729
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.728
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.726
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.726
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 0.724
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 0.719
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.719
2ag0 TPPBenzaldehyde lyase / 0.718
4qel TZDBenzoylformate decarboxylase 4.1.1.7 0.718
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 0.717
4c7x TPPTransketolase / 0.716
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.715
3upt TPPTransketolase / 0.714
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.714
2r8p T6FTransketolase 1 / 0.713
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 0.713
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.712
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.712
2ezt TDMPyruvate oxidase 1.2.3.3 0.711
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.710
4jub TPPBenzoylformate decarboxylase 4.1.1.7 0.709
1y9d TPPPyruvate oxidase 1.2.3.3 0.708
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 0.708
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.706
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.704
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.701
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.701
3m7i TPPTransketolase / 0.700
2r5n TPPTransketolase 1 / 0.699
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.697
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.696
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.695
2uz1 TPPBenzaldehyde lyase / 0.694
2o1x TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.690
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 0.688
2c42 TPPPyruvate synthase / 0.687
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.686
1upa TPPN(2)-(2-carboxyethyl)arginine synthase / 0.684
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 0.682
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.678
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.677
1tkc M6TTransketolase 1 2.2.1.1 0.676
2ez9 TDKPyruvate oxidase 1.2.3.3 0.676
3rim TPPTransketolase 2.2.1.1 0.674
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.674
3m6l TPPTransketolase / 0.672
5c4i TPPOxalate oxidoreductase subunit alpha / 0.669
5c4i TPPOxalate oxidoreductase subunit beta / 0.669
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.668
2pan TDPGlyoxylate carboligase 4.1.1.47 0.667
3dl0 AP5Adenylate kinase / 0.667
4fvr ATPTyrosine-protein kinase JAK2 / 0.666
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.664
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.664
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.663
3kmw ATPIntegrin-linked protein kinase 2.7.11.1 0.661
3m1f ATPActin, alpha skeletal muscle / 0.659
3mhy ATPNitrogen regulatory protein P-II 1 / 0.659
4fvq ATPTyrosine-protein kinase JAK2 / 0.659
2a41 ATPActin, alpha skeletal muscle / 0.658
2ihv TPPN(2)-(2-carboxyethyl)arginine synthase / 0.658
2ywv ADPPhosphoribosylaminoimidazole-succinocarboxamide synthase / 0.657
2gqr ADPPhosphoribosylaminoimidazole-succinocarboxamide synthase 6.3.2.6 0.656
4mit GTPRho-related protein racC / 0.656
3krf DSTGeranyl diphosphate synthase large subunit / 0.655
3m34 TPPTransketolase / 0.653
4nu0 AP5Adenylate kinase / 0.653
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.652
3tso GNPRas-related protein Rab-25 / 0.652
1t44 ATPActin, alpha skeletal muscle / 0.650
3zfd ANPChromosome-associated kinesin KIF4 / 0.650
4pl0 ANPMicrocin-J25 export ATP-binding/permease protein McjD / 0.650