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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
2jla TPP 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.306
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.236
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.234
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.223
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.219
5ej9 TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.216
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.191
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.173
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.172
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.033
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 1.024
2x7j TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.993
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.968
4cok TPPPyruvate decarboxylase / 0.862
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.860
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.850
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.847
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.844
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.830
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.822
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.821
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.816
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.805
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.801
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.791
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.789
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.789
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.787
3lq2 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.770
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.767
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.764
3fzn D7KBenzoylformate decarboxylase 4.1.1.7 0.762
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.758
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.754
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.750
1umc TDP2-oxoisovalerate dehydrogenase subunit alpha 1.2.4.4 0.749
1umc TDP2-oxoisovalerate dehydrogenase subunit beta 1.2.4.4 0.749
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.748
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.747
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.745
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.744
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.744
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.742
5c4i TPPOxalate oxidoreductase subunit alpha / 0.740
5c4i TPPOxalate oxidoreductase subunit beta / 0.740
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.739
1qpb TPPPyruvate decarboxylase isozyme 1 / 0.737
3lq4 TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.736
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.730
3ahj TPPProbable phosphoketolase / 0.730
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.728
1po7 TZDBenzoylformate decarboxylase 4.1.1.7 0.726
2r8o T5XTransketolase 1 / 0.726
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.724
5ahk TPPAcetolactate synthase II, large subunit / 0.723
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.721
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.719
3dv0 TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.717
3dv0 TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.717
3exf TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.716
3exf TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.716
4jub TPPBenzoylformate decarboxylase 4.1.1.7 0.715
3fsj D7KBenzoylformate decarboxylase 4.1.1.7 0.714
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.713
4mq5 TPPBenzoylformate decarboxylase 4.1.1.7 0.712
1bfd TPPBenzoylformate decarboxylase 4.1.1.7 0.711
1pox TPPPyruvate oxidase 1.2.3.3 0.710
4gg1 TZDBenzoylformate decarboxylase 4.1.1.7 0.710
1w88 TDPPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.709
1w88 TDPPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.709
2j9f THV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.709
2j9f THV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial 1.2.4.4 0.709
3upt TPPTransketolase / 0.709
4qel TZDBenzoylformate decarboxylase 4.1.1.7 0.709
2fwn TDPBenzoylformate decarboxylase 4.1.1.7 0.708
2c42 TPPPyruvate synthase / 0.706
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.705
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.704
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.704
2pan TDPGlyoxylate carboligase 4.1.1.47 0.703
4ju9 TZDBenzoylformate decarboxylase 4.1.1.7 0.703
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.702
3m34 TPPTransketolase / 0.701
3eya TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.699
3rim TPPTransketolase 2.2.1.1 0.695
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.694
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.694
3zhu TD8Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.694
2g25 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.693
2ezt TDMPyruvate oxidase 1.2.3.3 0.692
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.692
1y9d TPPPyruvate oxidase 1.2.3.3 0.691
2pda TPPPyruvate synthase / 0.691
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 0.691
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 0.690
1tkb N1TTransketolase 1 2.2.1.1 0.688
3ahe THDProbable phosphoketolase / 0.687
1trk TPPTransketolase 1 2.2.1.1 0.686
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.684
1tkc M6TTransketolase 1 2.2.1.1 0.680
2ji9 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.680
2ag1 TPPBenzaldehyde lyase / 0.679
2jib TPPOxalyl-CoA decarboxylase 4.1.1.8 0.679
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.679
2r5n TPPTransketolase 1 / 0.678
2c31 TZDOxalyl-CoA decarboxylase 4.1.1.8 0.677
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 0.677
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.676
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.675
5dgt TZDBenzoylformate decarboxylase 4.1.1.7 0.675
2ez9 TDKPyruvate oxidase 1.2.3.3 0.673
2ihv TPPN(2)-(2-carboxyethyl)arginine synthase / 0.673
2uz1 TPPBenzaldehyde lyase / 0.672
1gpu THDTransketolase 1 2.2.1.1 0.671
2ag0 TPPBenzaldehyde lyase / 0.671
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.671
1upc TPPN(2)-(2-carboxyethyl)arginine synthase / 0.669
2c3u 2TPPyruvate synthase / 0.666
2c3o TPPPyruvate synthase / 0.665
2r8p T6FTransketolase 1 / 0.663
2ji6 TPWOxalyl-CoA decarboxylase 4.1.1.8 0.658
3duf R1TPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.656
3duf R1TPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.656
2o1x TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.655
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.654
3m7i TPPTransketolase / 0.654
1ngs TPPTransketolase 1 2.2.1.1 0.651
1pow TPPPyruvate oxidase 1.2.3.3 0.651
3iae D7KBenzaldehyde lyase / 0.651
3m0e ATPTranscriptional regulator (NtrC family) / 0.650
4c2u ANPDNA helicase / 0.650