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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
1pox TPP Pyruvate oxidase 1.2.3.3

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1pox TPPPyruvate oxidase 1.2.3.3 1.095
2ez9 TDKPyruvate oxidase 1.2.3.3 1.061
1y9d TPPPyruvate oxidase 1.2.3.3 1.060
2ezt TDMPyruvate oxidase 1.2.3.3 1.041
1pow TPPPyruvate oxidase 1.2.3.3 0.981
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.877
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.866
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.834
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.831
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 0.825
4cok TPPPyruvate decarboxylase / 0.822
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.819
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 0.818
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.817
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.816
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.813
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.811
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.802
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 0.802
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.798
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 0.798
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.792
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.788
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.786
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.782
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.782
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.777
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 0.776
5ahk TPPAcetolactate synthase II, large subunit / 0.772
1kek HTLPyruvate synthase / 0.770
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.768
4jub TPPBenzoylformate decarboxylase 4.1.1.7 0.765
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 0.764
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.764
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.762
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.761
3ahj TPPProbable phosphoketolase / 0.760
2pan TDPGlyoxylate carboligase 4.1.1.47 0.758
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.757
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.756
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.755
4qel TZDBenzoylformate decarboxylase 4.1.1.7 0.754
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 0.753
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.752
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.751
5c4i TPPOxalate oxidoreductase subunit alpha / 0.751
5c4i TPPOxalate oxidoreductase subunit beta / 0.751
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.750
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.750
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.748
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.743
3ahi HTLProbable phosphoketolase / 0.742
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.741
2uza HTLPyruvate synthase / 0.740
2c3p 1TPPyruvate synthase / 0.739
3iae D7KBenzaldehyde lyase / 0.736
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.735
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.735
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.735
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.735
3d7k D7KBenzaldehyde lyase / 0.734
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.731
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.730
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.725
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.724
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.724
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.723
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.720
2ag0 TPPBenzaldehyde lyase / 0.719
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 0.718
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.718
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.718
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.717
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 0.712
4qpz TPPBenzaldehyde lyase / 0.711
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.710
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.710
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.710
2c3u 2TPPyruvate synthase / 0.709
5exd TPPOxalate oxidoreductase subunit alpha / 0.709
5exd TPPOxalate oxidoreductase subunit beta / 0.709
2c42 TPPPyruvate synthase / 0.707
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.707
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.707
1v11 TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.703
2uz1 TPPBenzaldehyde lyase / 0.701
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.700
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.700
3ahe THDProbable phosphoketolase / 0.699
2iht TPPN(2)-(2-carboxyethyl)arginine synthase / 0.697
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.697
1upb TPPN(2)-(2-carboxyethyl)arginine synthase / 0.696
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.696
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.696
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.696
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.696
1upa TPPN(2)-(2-carboxyethyl)arginine synthase / 0.694
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.694
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.692
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.692
2r8o T5XTransketolase 1 / 0.691
5la6 GTPTubulin alpha-1B chain / 0.690
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.687
2ag1 TPPBenzaldehyde lyase / 0.684
1gpu THDTransketolase 1 2.2.1.1 0.681
2c31 TZDOxalyl-CoA decarboxylase 4.1.1.8 0.680
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.677
3upt TPPTransketolase / 0.676
4yj2 GTPTubulin alpha-1B chain / 0.676
1upc TPPN(2)-(2-carboxyethyl)arginine synthase / 0.675
2c3y HTLPyruvate synthase / 0.675
2pda TPPPyruvate synthase / 0.675
2c3o TPPPyruvate synthase / 0.673
2ji9 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.673
2o1x TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.672
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.671
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.670
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.668
3m7i TPPTransketolase / 0.667
3ryh GTPTubulin alpha chain / 0.667
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.667
1sxj AGSReplication factor C subunit 1 / 0.664
1x09 IPEDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) 2.5.1.31 0.664
4ki0 ANPMaltose/maltodextrin import ATP-binding protein MalK / 0.664
1ay0 TPPTransketolase 1 2.2.1.1 0.660
1trk TPPTransketolase 1 2.2.1.1 0.660
2qtc TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.660
1tkc M6TTransketolase 1 2.2.1.1 0.659
3rim TPPTransketolase 2.2.1.1 0.659
3iaf TPPBenzaldehyde lyase / 0.658
4col DTPUncharacterized protein / 0.657
4tl6 ANPCircadian clock protein kinase KaiC 2.7.11.1 0.653
1ngs TPPTransketolase 1 2.2.1.1 0.651
2r8p T6FTransketolase 1 / 0.651
1ky2 GNPGTP-binding protein YPT7 / 0.650