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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
3zhv TDW Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 1.260
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 1.206
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 1.169
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 1.139
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 1.097
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.985
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.876
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.876
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.873
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.873
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.871
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.871
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.820
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.820
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.801
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.801
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.796
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.794
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.794
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.785
5ahk TPPAcetolactate synthase II, large subunit / 0.764
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.756
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.753
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.749
3exf TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.749
3exf TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.749
2o1x TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.747
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.745
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.743
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.733
2r8o T5XTransketolase 1 / 0.731
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.731
3ahi HTLProbable phosphoketolase / 0.727
3d7k D7KBenzaldehyde lyase / 0.726
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.725
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.722
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.722
3ahe THDProbable phosphoketolase / 0.719
3ahj TPPProbable phosphoketolase / 0.716
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.713
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.711
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.709
1y9d TPPPyruvate oxidase 1.2.3.3 0.708
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.706
2r5n TPPTransketolase 1 / 0.705
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.704
3upt TPPTransketolase / 0.701
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.700
2ez9 TDKPyruvate oxidase 1.2.3.3 0.700
2ezt TDMPyruvate oxidase 1.2.3.3 0.700
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.700
1gpu THDTransketolase 1 2.2.1.1 0.699
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.699
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.699
1trk TPPTransketolase 1 2.2.1.1 0.698
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.698
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.696
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.696
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.694
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.694
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.693
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.693
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.692
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 0.692
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.691
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.691
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.689
1pox TPPPyruvate oxidase 1.2.3.3 0.687
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.687
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.686
5c4i TPPOxalate oxidoreductase subunit alpha / 0.686
5c4i TPPOxalate oxidoreductase subunit beta / 0.686
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.686
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.685
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.684
1ay0 TPPTransketolase 1 2.2.1.1 0.683
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.683
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.682
3rim TPPTransketolase 2.2.1.1 0.682
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 0.681
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.681
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.681
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 0.681
1kek HTLPyruvate synthase / 0.680
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.680
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.679
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.678
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.678
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.678
3m34 TPPTransketolase / 0.678
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.677
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.677
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.676
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.674
3iae D7KBenzaldehyde lyase / 0.671
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.670
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.669
2r8p T6FTransketolase 1 / 0.668
4cok TPPPyruvate decarboxylase / 0.668
4qpz TPPBenzaldehyde lyase / 0.667
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.666
1uqt U2FTrehalose-6-phosphate synthase 2.4.1.15 0.666
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 0.666
1tkc M6TTransketolase 1 2.2.1.1 0.665
1r4l XX5Angiotensin-converting enzyme 2 3.4.17.23 0.662
3m6l TPPTransketolase / 0.661
3m7i TPPTransketolase / 0.661
1pow TPPPyruvate oxidase 1.2.3.3 0.660
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 0.660
3d2r ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial 2.7.11.2 0.659
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 0.659
2c31 TZDOxalyl-CoA decarboxylase 4.1.1.8 0.656
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.656
2ji9 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.655
4qel TZDBenzoylformate decarboxylase 4.1.1.7 0.655
4z54 GDPNeuronal-specific septin-3 / 0.653