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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
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/1.000
4g2j0WFHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.785
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.700
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.683
3dys5GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.650
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.625
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.615
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.592
4g2l0WLHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.587
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.582
3k3ePDBHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.576
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.573
3jsiWTCHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.566
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.552
3qi4IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.533
3dylIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.531
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.529
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.528
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.523
3dyqIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.516
3g45988cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.489
1xomCIOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.482
3v94WYQPhosphodiesterase/0.478
3w5eNVWcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.469
3sni546cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.468
3o57ZG2cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.467
1xoqROFcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.466
1xonPILcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.460
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.459
3sn7540cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.459
4phlPILPhosphodiesterase/0.458
3o56ZG1cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.457
3g4iD71cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.456
4fcd0T6cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.456
4hf415HcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.453
2fm0M98cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.452
3g4lROFcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.452
3ituIBMcGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.451
1y2e5DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.450
2ovyPFJcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.450
4fcb0T7cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.450
1oynROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.449
3k4s0MOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.449
3wd9QPCcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.447
1zknIBMcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441