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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
2pan TDP Glyoxylate carboligase 4.1.1.47

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2pan TDPGlyoxylate carboligase 4.1.1.47 1.271
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.840
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.840
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.839
1y9d TPPPyruvate oxidase 1.2.3.3 0.813
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 0.808
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.808
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.807
1pow TPPPyruvate oxidase 1.2.3.3 0.806
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.801
2ez9 TDKPyruvate oxidase 1.2.3.3 0.794
4cok TPPPyruvate decarboxylase / 0.792
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 0.791
4jub TPPBenzoylformate decarboxylase 4.1.1.7 0.790
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.790
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 0.789
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 0.787
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.785
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.785
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.779
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.776
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 0.774
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.774
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.774
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.772
4qel TZDBenzoylformate decarboxylase 4.1.1.7 0.772
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.771
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 0.767
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.765
5ahk TPPAcetolactate synthase II, large subunit / 0.759
1pox TPPPyruvate oxidase 1.2.3.3 0.758
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 0.758
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.757
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.755
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.753
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.751
2ezt TDMPyruvate oxidase 1.2.3.3 0.744
2ihv TPPN(2)-(2-carboxyethyl)arginine synthase / 0.743
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.740
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.739
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 0.738
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.735
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.734
1kek HTLPyruvate synthase / 0.733
5c4i TPPOxalate oxidoreductase subunit alpha / 0.731
5c4i TPPOxalate oxidoreductase subunit beta / 0.731
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.730
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.726
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.726
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.722
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.722
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.722
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.720
2c42 TPPPyruvate synthase / 0.717
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.716
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 0.715
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.714
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.714
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.713
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.713
2c3p 1TPPyruvate synthase / 0.710
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.709
2uza HTLPyruvate synthase / 0.707
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.705
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.704
1upc TPPN(2)-(2-carboxyethyl)arginine synthase / 0.704
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.703
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.702
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.702
1upa TPPN(2)-(2-carboxyethyl)arginine synthase / 0.701
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.701
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.701
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.700
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.700
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.698
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.697
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.697
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.696
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.696
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.696
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.696
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.696
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.694
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 0.685
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.681
2c3u 2TPPyruvate synthase / 0.681
3d7k D7KBenzaldehyde lyase / 0.681
3ahj TPPProbable phosphoketolase / 0.679
2ji6 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.676
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.676
5exd TPPOxalate oxidoreductase subunit alpha / 0.676
5exd TPPOxalate oxidoreductase subunit beta / 0.676
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.669
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.667
3iae D7KBenzaldehyde lyase / 0.667
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.666
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.666
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.663
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.663
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.663
3iaf TPPBenzaldehyde lyase / 0.663
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.662
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.662
2uz1 TPPBenzaldehyde lyase / 0.661
3ahi HTLProbable phosphoketolase / 0.659
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.659
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.656
2a2c ADPN-acetylgalactosamine kinase 2.7.1.157 0.655
2ag0 TPPBenzaldehyde lyase / 0.654
2c3y HTLPyruvate synthase / 0.654
2ji9 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.654
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.654
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.651
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.651