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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
2yg3FADPutrescine oxidase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2yg3FADPutrescine oxidase/1.000
2yg5FADPutrescine oxidase/0.662
2yg4FADPutrescine oxidase/0.629
3k7mFAD6-hydroxy-L-nicotine oxidase/0.533
2yg7FADPutrescine oxidase/0.532
2vvlFADMonoamine oxidase N1.4.3.40.530
3zdnFADMonoamine oxidase N1.4.3.40.526
3k7tFAD6-hydroxy-L-nicotine oxidase/0.520
4gdpFADPolyamine oxidase FMS1/0.518
4gutFADLysine-specific histone demethylase 1B10.505
3bi2FADPolyamine oxidase FMS1/0.504
3rhaFDAPutrescine oxidase/0.498
2uxxFAJLysine-specific histone demethylase 1A10.491
3cn8FADPolyamine oxidase FMS1/0.486
3bi5FADPolyamine oxidase FMS1/0.485
2hkoFADLysine-specific histone demethylase 1A10.482
1xpqFADPolyamine oxidase FMS1/0.476
2dw4FADLysine-specific histone demethylase 1A10.473
1rsgFADPolyamine oxidase FMS1/0.469
4xbfFADLysine-specific histone demethylase 1A10.468
2iw5FADLysine-specific histone demethylase 1A10.467
4fwjFADLysine-specific histone demethylase 1B10.463
1z6lFADPolyamine oxidase FMS1/0.459
3cndFADPolyamine oxidase FMS1/0.459
3gdpFAD(R)-mandelonitrile lyase 24.1.2.100.457
1h83FADPolyamine oxidase1.5.3.140.456
3zoiM2WIsopenicillin N synthase1.21.3.10.454
4echFADPolyamine oxidase FMS1/0.454
1ot7IU5Bile acid receptor/0.453
2xveFADPutative flavin-containing monooxygenase/0.453
2ym1FADPhenylacetone monooxygenase1.14.13.920.452
2xlpFADPutative flavin-containing monooxygenase/0.451
3kpfFADPolyamine oxidase1.5.3.140.450
4c3yFAD3-ketosteroid dehydrogenase/0.446
1powFADPyruvate oxidase1.2.3.30.445
4fweFADLysine-specific histone demethylase 1B10.445
3cntFADPolyamine oxidase FMS1/0.444
1h81FADPolyamine oxidase1.5.3.140.443
2xvfFADPutative flavin-containing monooxygenase/0.443
3we0FADLysine 2-monooxygenase/0.443
4c3xFAD3-ketosteroid dehydrogenase/0.443
3pqbVGPPutative oxidoreductase/0.442
1so2666cGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.441
2gvcFADThiol-specific monooxygenase1.14.130.441
4brgGNPEctonucleoside triphosphate diphosphohydrolase I/0.440