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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
1upb TPP N(2)-(2-carboxyethyl)arginine synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1upb TPPN(2)-(2-carboxyethyl)arginine synthase / 1.221
2iht TPPN(2)-(2-carboxyethyl)arginine synthase / 1.202
1upa TPPN(2)-(2-carboxyethyl)arginine synthase / 1.197
1upc TPPN(2)-(2-carboxyethyl)arginine synthase / 1.196
2ihv TPPN(2)-(2-carboxyethyl)arginine synthase / 1.104
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.967
5ahk TPPAcetolactate synthase II, large subunit / 0.787
2q5o TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.764
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.750
2uza HTLPyruvate synthase / 0.728
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.719
4gm1 TZDBenzoylformate decarboxylase 4.1.1.7 0.717
1y9d TPPPyruvate oxidase 1.2.3.3 0.709
1pow TPPPyruvate oxidase 1.2.3.3 0.708
2c3o TPPPyruvate synthase / 0.708
2uz1 TPPBenzaldehyde lyase / 0.707
2c31 TZDOxalyl-CoA decarboxylase 4.1.1.8 0.703
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.700
2ez9 TDKPyruvate oxidase 1.2.3.3 0.699
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.699
4mzx TZDBenzoylformate decarboxylase 4.1.1.7 0.697
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.696
1pox TPPPyruvate oxidase 1.2.3.3 0.696
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.694
2jib TPPOxalyl-CoA decarboxylase 4.1.1.8 0.692
3ey9 TDPPyruvate dehydrogenase [ubiquinone] 1.2.5.1 0.692
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.692
5c4i TPPOxalate oxidoreductase subunit alpha / 0.689
5c4i TPPOxalate oxidoreductase subunit beta / 0.689
2o1x TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.688
2c3u 2TPPyruvate synthase / 0.686
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.684
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.681
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.681
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.678
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.677
1ols TDP2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial 1.2.4.4 0.676
4k9o TPPBenzoylformate decarboxylase 4.1.1.7 0.676
4jub TPPBenzoylformate decarboxylase 4.1.1.7 0.675
1mcz TDPBenzoylformate decarboxylase 4.1.1.7 0.672
2ezt TDMPyruvate oxidase 1.2.3.3 0.672
5esd TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.671
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.667
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 0.667
3zhq TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.666
3zhs TD6Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.664
4ju8 TZDBenzoylformate decarboxylase 4.1.1.7 0.662
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.661
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.661
3zht TD9Multifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.661
4mpp TZDBenzoylformate decarboxylase 4.1.1.7 0.661
4cok TPPPyruvate decarboxylase / 0.659
4gm4 TZDBenzoylformate decarboxylase 4.1.1.7 0.659
4mpr TPPBenzoylformate decarboxylase 4.1.1.7 0.659
2ag1 TPPBenzaldehyde lyase / 0.658
3ahj TPPProbable phosphoketolase / 0.657
4jd5 TZDBenzoylformate decarboxylase 4.1.1.7 0.657
4qel TZDBenzoylformate decarboxylase 4.1.1.7 0.657
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.657
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.656
3upt TPPTransketolase / 0.655
1gpu THDTransketolase 1 2.2.1.1 0.651
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 0.651
1kek HTLPyruvate synthase / 0.650