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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
2yg5FADPutrescine oxidase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2yg5FADPutrescine oxidase/1.000
2yg4FADPutrescine oxidase/0.628
2yg3FADPutrescine oxidase/0.600
2yg7FADPutrescine oxidase/0.558
3rhaFDAPutrescine oxidase/0.532
3zdnFADMonoamine oxidase N1.4.3.40.525
3k7mFAD6-hydroxy-L-nicotine oxidase/0.524
3k7tFAD6-hydroxy-L-nicotine oxidase/0.523
3bi2FADPolyamine oxidase FMS1/0.522
2vvlFADMonoamine oxidase N1.4.3.40.515
4gdpFADPolyamine oxidase FMS1/0.515
2hkoFADLysine-specific histone demethylase 1A10.507
3cn8FADPolyamine oxidase FMS1/0.497
4gutFADLysine-specific histone demethylase 1B10.490
1xpqFADPolyamine oxidase FMS1/0.480
2dw4FADLysine-specific histone demethylase 1A10.476
4i58FADCyclohexylamine Oxidase/0.469
3cndFADPolyamine oxidase FMS1/0.465
2uxxFAJLysine-specific histone demethylase 1A10.464
3bi5FADPolyamine oxidase FMS1/0.464
2iw5FADLysine-specific histone demethylase 1A10.461
3cntFADPolyamine oxidase FMS1/0.454
3kpfFADPolyamine oxidase1.5.3.140.454
3we0FADLysine 2-monooxygenase/0.452
4guuFA9Lysine-specific histone demethylase 1B10.451
1h83FADPolyamine oxidase1.5.3.140.450
1rsgFADPolyamine oxidase FMS1/0.446
5l3dFADLysine-specific histone demethylase 1A10.443
4echFADPolyamine oxidase FMS1/0.442