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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
3c0zSHHHistone deacetylase 73.5.1.98

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3c0zSHHHistone deacetylase 73.5.1.981.000
3znrNU9Histone deacetylase 73.5.1.980.521
3c10TSNHistone deacetylase 73.5.1.980.510
3znsNU7Histone deacetylase 73.5.1.980.507
4cbyKEEHistone deacetylase 43.5.1.980.496
1je1GMPPurine nucleoside phosphorylase/0.481
1akcPPEAspartate aminotransferase, mitochondrial2.6.1.10.476
2rc6FADFerredoxin--NADP reductase/0.466
1gg5E09NAD(P)H dehydrogenase [quinone] 11.6.5.20.465
2xjeU5PCytosolic purine 5'-nucleotidase3.1.3.50.463
4bfuZVUPantothenate kinase2.7.1.330.461
1ppjANYCytochrome b/0.459
1ahgTYR_PLPAspartate aminotransferase2.6.1.10.458
3sfh1DIHistone deacetylase 83.5.1.980.457
4dbc3QPAspartate aminotransferase2.6.1.10.457
4to4DCPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.456
2ejzSAHDiphthine synthase/0.454
2fhjH4ZFormylmethanofuran--tetrahydromethanopterin formyltransferase2.3.1.1010.454
2a58RBF6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.453
1gtrATPGlutamine--tRNA ligase6.1.1.180.452
3h3r14HCollagen type IV alpha-3-binding protein/0.452
3rsv3RSBeta-secretase 13.4.23.460.452
3q9bB3NAcetylpolyamine amidohydrolase/0.451
1cq6PY4Aspartate aminotransferase2.6.1.10.450
1lnmDTXBilin-binding protein/0.450
1qrtATPGlutamine--tRNA ligase6.1.1.180.450
1x2bSTXProline iminopeptidase3.4.11.50.450
1a9cGTPGTP cyclohydrolase 13.5.4.160.449
2zevIPEGeranylgeranyl pyrophosphate synthase/0.449
3rtnRTNBeta-secretase 13.4.23.460.449
1x28PGUAspartate aminotransferase2.6.1.10.447
4u163C0Muscarinic acetylcholine receptor M3/0.447
1toiHCIAspartate aminotransferase2.6.1.10.446
1x1cSAHC-20 methyltransferase/0.446
2rd2QSIGlutamine--tRNA ligase6.1.1.180.446
4j7gTRHPCZA361.3/0.446
1xvvCCQL-carnitine CoA-transferase/0.445
3elePLPAminotransferase/0.445
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.445
1tojHCIAspartate aminotransferase2.6.1.10.444
3h3sH15Collagen type IV alpha-3-binding protein/0.444
3w5uFADFerredoxin/0.444
4bfwZVWPantothenate kinase2.7.1.330.444
4bfxZVXPantothenate kinase2.7.1.330.444
2gevCOKPantothenate kinase2.7.1.330.443
1euyQSIGlutamine--tRNA ligase6.1.1.180.442
1qtqQSIGlutamine--tRNA ligase6.1.1.180.442
4fl0PLPAminotransferase ALD1, chloroplastic2.6.10.442
1u1f183Uridine phosphorylase2.4.2.30.441
2fznFADBifunctional protein PutA1.5.5.20.441
3jyoNADQuinate/shikimate dehydrogenase (NAD(+))/0.441
4c43FADFerredoxin--NADP reductase1.18.1.20.441
1e63FADFerredoxin--NADP reductase1.18.1.20.440
3uyk0CXProbable NDP-rhamnosyltransferase/0.440
4bftZVTPantothenate kinase2.7.1.330.440
4yaf2AMNADPH--cytochrome P450 reductase/0.440