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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
2vcgS17Histone deacetylase-like amidohydrolase3.5.1

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2vcgS17Histone deacetylase-like amidohydrolase3.5.11.000
2gh6CF3Histone deacetylase-like amidohydrolase3.5.10.603
1zz1SHHHistone deacetylase-like amidohydrolase3.5.10.534
3g4iD71cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.497
1drfFOLDihydrofolate reductase1.5.1.30.491
1s3uTQDDihydrofolate reductase1.5.1.30.489
4hf415HcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.478
4eilFOLBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.477
3l6jZ90Alr2278 protein/0.476
2b01TUDPhospholipase A2, major isoenzyme3.1.1.40.469
4iae1DXAlr2278 protein/0.466
1xoqROFcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.463
3k4s0MOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.463
4myq19TcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.463
4bfpSWYTankyrase-22.4.2.300.461
5bt42LOBromodomain-containing protein 4/0.461
2gvcFADThiol-specific monooxygenase1.14.130.460
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.459
4jvlESTEstrogen sulfotransferase2.8.2.40.459
1zg32HIIsoflavone 4'-O-methyltransferase/0.458
3w5eNVWcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.458
3a1l2CCCytochrome P450/0.457
1e1nFADNADPH:adrenodoxin oxidoreductase, mitochondrial1.18.1.60.456
4jlj1NMDeoxycytidine kinase2.7.1.740.455
4jqh1MFAlr2278 protein/0.455
3wavDWVEctonucleotide pyrophosphatase/phosphodiesterase family member 23.1.4.390.454
4a0sCO8Octenoyl-CoA reductase/carboxylase/0.454
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.453
1re9DSOCamphor 5-monooxygenase1.14.15.10.453
2fs4PZ1Renin3.4.23.150.453
1pz1NAPGeneral stress protein 69/0.452
1q0zAKAAclacinomycin methylesterase RdmC3.1.1.950.452
1w7kADPDihydrofolate synthase/folylpolyglutamate synthase6.3.2.120.452
3g58988cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.452
4ky404JBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.452
3t8xT8XT-cell surface glycoprotein CD1b/0.451
4rw4494Gag-Pol polyprotein2.7.7.490.451
5ab6CAANonspecific lipid-transfer protein, putative/0.451
3hywDCQSulfide-quinone reductase/0.450
4iaq2GM5-hydroxytryptamine receptor 1B/0.450
1q0rAKTAclacinomycin methylesterase RdmC3.1.1.950.449
1tbbROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.449
2dhfDZFDihydrofolate reductase1.5.1.30.449
2jj2ANPATP synthase subunit beta, mitochondrial3.6.3.140.448
3is9AC7Gag-Pol polyprotein2.7.7.490.448
3vf60H6Glucokinase2.7.1.20.448
4dm6TTBRetinoic acid receptor beta/0.448
4ea2RWZDehydrosqualene synthase/0.448
5uviZMAAdenosine receptor A2a/0.448
1rf9DBRCamphor 5-monooxygenase1.14.15.10.447
2hq9FADMll6688 protein/0.447
3h6k33TCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.447
4muw2F4cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.447
3jsuKA5Bifunctional dihydrofolate reductase-thymidylate synthase/0.446
3qppPFWcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
3up3XCAaceDAF-12/0.446
1sqqOSTCytochrome b/0.445
2h42VIAcGMP-specific 3',5'-cyclic phosphodiesterase/0.445
2ntvP1HEnoyl-[acyl-carrier-protein] reductase [NADH]/0.445
2p15EZTEstrogen receptor/0.445
3ctj320Hepatocyte growth factor receptor2.7.10.10.445
3sni546cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.445
3w78CBDFMN-dependent NADH-azoreductase/0.445
4h4o506Gag-Pol polyprotein2.7.7.490.445
4phlPILPhosphodiesterase/0.445
4rbs0RVMetallo-beta-lactamase type 2/0.445
1pd9CO4Dihydrofolate reductase1.5.1.30.444
3gcq1BUMitogen-activated protein kinase 14/0.444
4j6bPLOCytochrome P450 monooxygenase/0.444
4lxjLANLanosterol 14-alpha demethylase1.14.13.700.444
2b5j3ACGag-Pol polyprotein2.7.7.490.443
3o8gO8GHTH-type transcriptional regulator EthR/0.443
3uzwNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.443
3w0hW12Vitamin D3 receptor/0.443
4heu15JcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.443
4jvmXDIEstrogen sulfotransferase2.8.2.40.443
5iua6DXAdenosine receptor A2a/0.442
1y2c3DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441
1y2k7DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441
2ibzSMACytochrome b/0.441
3ghvGHCDihydrofolate reductase1.5.1.30.441
3v4eCOAPutative acetyltransferase SACOL25702.3.10.441
1mvsDTMDihydrofolate reductase1.5.1.30.440
3p6nDSOCamphor 5-monooxygenase1.14.15.10.440
4g1z0VPVitamin D3 receptor A/0.440
4hw319GInduced myeloid leukemia cell differentiation protein Mcl-1/0.440
3uzcT4EAdenosine receptor A2a/0.440