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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
4wfr2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.37

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4wfr2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.371.000
4wdfA2P2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.634
3zbzOVE2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.621
2ydd2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.603
2yq92AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.599
2yozOVE2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.569
3zbrNAP2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.547
4wdgA2P2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.545
3zbsOVE2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.538
4wdb2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.536
2ydbNAP2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.531
4wda2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.514
2yp0OVE2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.502
2yphQQY2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.491
4bfvZVVPantothenate kinase2.7.1.330.482
4bfxZVXPantothenate kinase2.7.1.330.482
5irnADPNucleotide binding oligomerization domain containing 2/0.478
4bftZVTPantothenate kinase2.7.1.330.477
3pqbVGPPutative oxidoreductase/0.460
1sojIBMcGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.459
3g49NAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.457
4bfsZVSPantothenate kinase2.7.1.330.457
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.455
3bv7NAP3-oxo-5-beta-steroid 4-dehydrogenase/0.455
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.454
2gevCOKPantothenate kinase2.7.1.330.454
4bb3KKAIsopenicillin N synthase1.21.3.10.454
1osvCHCBile acid receptor/0.453
1xddAAYIntegrin alpha-L/0.453
4a84DXCMajor pollen allergen Bet v 1-A/0.451
4rvgTYDD-mycarose 3-C-methyltransferase/0.450
3dopNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.449
4bfwZVWPantothenate kinase2.7.1.330.448
4j0v1H7Beta-secretase 13.4.23.460.448
2g1s4IGRenin3.4.23.150.447
4oviN01Phenylacetone monooxygenase1.14.13.920.447
2d1yNADOxidoreductase, short-chain dehydrogenase/reductase family/0.446
3slkNDPPolyketide synthase extender module 2/0.445
1udtVIAcGMP-specific 3',5'-cyclic phosphodiesterase/0.444
1xomCIOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.444
3caqNDP3-oxo-5-beta-steroid 4-dehydrogenase/0.444
3jynNDPQuinone oxidoreductase/0.444
5eb5FAD(R)-mandelonitrile lyase 14.1.2.100.444
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.443
4oztP1AEcdysone receptor, putative/0.443
1rkpIBMcGMP-specific 3',5'-cyclic phosphodiesterase/0.442
1u65CP0Acetylcholinesterase3.1.1.70.442
1xh7R96cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.442
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.442
2ddoATPPyridoxine/pyridoxal/pyridoxamine kinase/0.442
2ikuLIYRenin3.4.23.150.442
5kj1NAJAlcohol dehydrogenase E chain1.1.1.10.442
1eveE20Acetylcholinesterase3.1.1.70.441
3hu1AGSTransitional endoplasmic reticulum ATPase3.6.4.60.441
3v94WYQPhosphodiesterase/0.441
4nfsNAJAlcohol dehydrogenase E chain1.1.1.10.441
1fm4DXCMajor pollen allergen Bet v 1-L/0.440
1odcA8BAcetylcholinesterase3.1.1.70.440
2il2LIXRenin3.4.23.150.440
2ktdPUCProstaglandin-H2 D-isomerase5.3.99.20.440
4bfuZVUPantothenate kinase2.7.1.330.440
4c77N01Phenylacetone monooxygenase1.14.13.920.440
5dp2NAPCurF/0.440