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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
2qtc 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
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 1.378
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 1.084
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 1.073
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 1.019
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 1.018
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.952
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.910
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.892
3ahi HTLProbable phosphoketolase / 0.844
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.829
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.829
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.815
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.803
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.803
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.795
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.792
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.783
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.776
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.775
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.775
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.773
5ahk TPPAcetolactate synthase II, large subunit / 0.773
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.760
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.760
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.758
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.757
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.754
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.754
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.751
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.750
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.749
3iae D7KBenzaldehyde lyase / 0.748
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.745
1y9d TPPPyruvate oxidase 1.2.3.3 0.740
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.737
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.736
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.735
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.733
3exf TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.723
3exf TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.723
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
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.719
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.719
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.715
4yj2 GTPTubulin alpha-1B chain / 0.714
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.714
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.713
1tkc M6TTransketolase 1 2.2.1.1 0.711
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.707
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.707
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.703
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.702
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.700
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.700
2ezt TDMPyruvate oxidase 1.2.3.3 0.698
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 0.697
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.693
3d7k D7KBenzaldehyde lyase / 0.692
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.691
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.689
3rim TPPTransketolase 2.2.1.1 0.689
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 0.689
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.689
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.689
1upa TPPN(2)-(2-carboxyethyl)arginine synthase / 0.688
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.686
3m7i TPPTransketolase / 0.685
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.684
1kek HTLPyruvate synthase / 0.683
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.683
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.680
3m34 TPPTransketolase / 0.678
4nu0 AP5Adenylate kinase / 0.677
3ahj TPPProbable phosphoketolase / 0.676
4cok TPPPyruvate decarboxylase / 0.675
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.675
2r8o T5XTransketolase 1 / 0.674
1ngs TPPTransketolase 1 2.2.1.1 0.673
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 0.673
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.671
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.671
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.671
3kmw ATPIntegrin-linked protein kinase 2.7.11.1 0.671
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.670
2c3p 1TPPyruvate synthase / 0.668
1ay0 TPPTransketolase 1 2.2.1.1 0.665
4dwb 0M7Farnesyl pyrophosphate synthase / 0.664
1trk TPPTransketolase 1 2.2.1.1 0.662
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.662
1pox TPPPyruvate oxidase 1.2.3.3 0.660
3wyf GTPGTP-binding nuclear protein / 0.660
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.659
3upt TPPTransketolase / 0.659
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.657
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 0.657
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.656
1th8 ADPAnti-sigma F factor / 0.655
2c3u 2TPPyruvate synthase / 0.653
2cvu ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.653
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.652
2pan TDPGlyoxylate carboligase 4.1.1.47 0.651
2ag0 TPPBenzaldehyde lyase / 0.650