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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
2ji9 TPW Oxalyl-CoA decarboxylase 4.1.1.8

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2ji9 TPWOxalyl-CoA decarboxylase 4.1.1.8 1.320
2c31 TZDOxalyl-CoA decarboxylase 4.1.1.8 1.301
2ji7 OXTOxalyl-CoA decarboxylase 4.1.1.8 1.233
2ji6 TPWOxalyl-CoA decarboxylase 4.1.1.8 1.223
2jib TPPOxalyl-CoA decarboxylase 4.1.1.8 1.050
2ihv TPPN(2)-(2-carboxyethyl)arginine synthase / 0.744
4gm0 TZDBenzoylformate decarboxylase 4.1.1.7 0.743
2v3w TPPBenzoylformate decarboxylase 4.1.1.7 0.741
2vk4 TPPPyruvate decarboxylase 4.1.1.1 0.730
2vk8 TPPPyruvate decarboxylase isozyme 1 / 0.720
2ag1 TPPBenzaldehyde lyase / 0.718
2w93 TPPPyruvate decarboxylase isozyme 1 / 0.716
1qpb TPPPyruvate decarboxylase isozyme 1 / 0.711
5ej6 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.709
1pvd TPPPyruvate decarboxylase isozyme 1 / 0.706
1rp7 TZDPyruvate dehydrogenase E1 component 1.2.4.1 0.706
4k9p TPPBenzoylformate decarboxylase 4.1.1.7 0.706
5ej4 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.706
5ahk TPPAcetolactate synthase II, large subunit / 0.705
1pyd TDPPyruvate decarboxylase isozyme 1 / 0.703
4juc TPPBenzoylformate decarboxylase 4.1.1.7 0.701
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.700
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.700
3oe1 TDLPyruvate decarboxylase 4.1.1.1 0.696
1mmg AGSMyosin-2 heavy chain / 0.694
4cok TPPPyruvate decarboxylase / 0.691
1y9d TPPPyruvate oxidase 1.2.3.3 0.690
5ej7 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.689
4zp1 TPPPyruvate decarboxylase 4.1.1.1 0.688
1l8a TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.687
4jsy GTPMetallophosphoesterase / 0.685
2o1s TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.683
5la6 GTPTubulin alpha-1B chain / 0.682
3hwx TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.681
4ffb GTPTubulin alpha-1 chain / 0.681
2jla TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.680
3m0e ATPTranscriptional regulator (NtrC family) / 0.680
5eja TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.680
1upc TPPN(2)-(2-carboxyethyl)arginine synthase / 0.679
2jlc TPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.678
1t91 GTPRas-related protein Rab-7a / 0.677
4juf TPPBenzoylformate decarboxylase 4.1.1.7 0.677
1ovm TPPIndole-3-pyruvate decarboxylase 4.1.1.74 0.675
3fvq ATPFe(3+) ions import ATP-binding protein FbpC / 0.675
3upt TPPTransketolase / 0.675
2pz8 APCNH(3)-dependent NAD(+) synthetase / 0.674
1pox TPPPyruvate oxidase 1.2.3.3 0.673
3zhr TPPMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.671
5itz GTPTubulin alpha-1B chain / 0.670
2q5q TPWIndole-3-pyruvate decarboxylase 4.1.1.74 0.669
2r5n TPPTransketolase 1 / 0.669
3exh TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.669
3exh TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.669
4mkf AP5Adenylate kinase / 0.668
5ej8 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.667
1p3j AP5Adenylate kinase / 0.666
3wyg GTPGTP-binding nuclear protein GSP1/CNR1 / 0.666
2iea TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.665
2iht TPPN(2)-(2-carboxyethyl)arginine synthase / 0.665
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.665
2r8o T5XTransketolase 1 / 0.665
3exf TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.665
3exf TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.665
5ej5 TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.665
1pow TPPPyruvate oxidase 1.2.3.3 0.664
1xef ATPAlpha-hemolysin translocation ATP-binding protein HlyB / 0.663
1jsc TPPAcetolactate synthase catalytic subunit, mitochondrial 2.2.1.6 0.661
2r8p T6FTransketolase 1 / 0.660
4k9n TZDBenzoylformate decarboxylase 4.1.1.7 0.660
1ozh HE3Acetolactate synthase, catabolic 2.2.1.6 0.659
2o1x TDP1-deoxy-D-xylulose-5-phosphate synthase 2.2.1.7 0.659
2c3o TPPPyruvate synthase / 0.658
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.657
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.657
1itz TPPTransketolase, chloroplastic 2.2.1.1 0.656
1upa TPPN(2)-(2-carboxyethyl)arginine synthase / 0.656
2ihu TP9N(2)-(2-carboxyethyl)arginine synthase / 0.656
3g6x DGTDNA polymerase iota 2.7.7.7 0.656
3ryh GTPTubulin alpha chain / 0.656
1w1w AGSStructural maintenance of chromosomes protein 1 / 0.655
2rgx AP5Adenylate kinase / 0.655
3zhv TDWMultifunctional 2-oxoglutarate metabolism enzyme 1.2.4.2 0.655
2pan TDPGlyoxylate carboligase 4.1.1.47 0.654
3w2w ATPCRISPR system Cmr subunit Cmr2 / 0.654
5eso TDP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 0.653
4qm6 GTPMetallophosphoesterase / 0.652
2qaj AP5Adenylate kinase / 0.650