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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
2qryTPSThiamine-binding periplasmic protein

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2qryTPSThiamine-binding periplasmic protein/1.000
2xufTZ4Acetylcholinesterase3.1.1.70.499
2xuoTZ4Acetylcholinesterase3.1.1.70.487
1ygkRRCPyridoxal kinase2.7.1.350.483
2xujTZ5Acetylcholinesterase3.1.1.70.483
1gg5E09NAD(P)H dehydrogenase [quinone] 11.6.5.20.482
1w6jR71Lanosterol synthase5.4.99.70.482
4ey7E20Acetylcholinesterase3.1.1.70.479
1h60STRPentaerythritol tetranitrate reductase/0.478
2xuqTZ4Acetylcholinesterase3.1.1.70.476
1h22E10Acetylcholinesterase3.1.1.70.473
2xupTZ5Acetylcholinesterase3.1.1.70.472
2pb1NFGGlucan 1,3-beta-glucosidase/0.471
3tfuPL8Adenosylmethionine-8-amino-7-oxononanoate aminotransferase2.6.1.620.471
1q83TZ5Acetylcholinesterase3.1.1.70.470
2ha6SCKAcetylcholinesterase3.1.1.70.470
2gyuHI6Acetylcholinesterase3.1.1.70.469
4n65FMNFMN-dependent NADH-azoreductase 1/0.469
1g63FMNEpidermin decarboxylase4.1.10.468
2gywOBIAcetylcholinesterase3.1.1.70.466
3f3y4OABile salt sulfotransferase2.8.2.140.466
2jf0HBPAcetylcholinesterase3.1.1.70.465
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.465
1dx6GNTAcetylcholinesterase3.1.1.70.462
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.460
2ixkTDOdTDP-4-dehydrorhamnose 3,5-epimerase5.1.3.130.459
3tn7NJPShort-chain alcohol dehydrogenase/0.459
2wu4HBPAcetylcholinesterase3.1.1.70.457
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.457
2xuhTZ4Acetylcholinesterase3.1.1.70.456
1yhjR6CPyridoxal kinase2.7.1.350.455
2abaSTRPentaerythritol tetranitrate reductase/0.455
4dbw511Aldo-keto reductase family 1 member C3/0.455
1vftDCSAlanine racemase/0.454
2aouCQAHistamine N-methyltransferase2.1.1.80.454
3ug8IMNAldo-keto reductase family 1 member C3/0.453
4g5dNDPProstaglandin F synthase1.1.1.1880.453
1w76GNTAcetylcholinesterase3.1.1.70.452
1x8lOXRRetinol dehydratase/0.451
2jgsBTNAvidin/0.451
3af2ACPPantothenate kinase2.7.1.330.451
4cf6CBDNAD(P)H dehydrogenase [quinone] 11.6.5.20.451
1xf0ASDAldo-keto reductase family 1 member C3/0.450
2xugTZ4Acetylcholinesterase3.1.1.70.450
3jsxCC2NAD(P)H dehydrogenase [quinone] 11.6.5.20.450
4b12C23Glycylpeptide N-tetradecanoyltransferase/0.450
1rkwPNTHTH-type transcriptional regulator QacR/0.449
1ry0PG2Aldo-keto reductase family 1 member C3/0.449
4a312CBGlycylpeptide N-tetradecanoyltransferase/0.449
1q84TZ4Acetylcholinesterase3.1.1.70.448
2f3815MAldo-keto reductase family 1 member C3/0.448
2aclL05Oxysterols receptor LXR-alpha/0.447
2cmfF11Acetylcholinesterase3.1.1.70.447
4b7zQ4QAcetylcholinesterase3.1.1.70.447
5jqhCAUBeta-2 adrenergic receptor/0.447
1xkqNDPUncharacterized protein/0.446
2cekN8TAcetylcholinesterase3.1.1.70.446
2xukTZ5Acetylcholinesterase3.1.1.70.446
5d6lCAUBeta-2 adrenergic receptor/0.446
1ut6A8NAcetylcholinesterase3.1.1.70.445
2xuiTZ5Acetylcholinesterase3.1.1.70.445
3af0GDPPantothenate kinase2.7.1.330.445
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.445
4hmn16JAldo-keto reductase family 1 member C3/0.445
1uhoVDNcGMP-specific 3',5'-cyclic phosphodiesterase/0.444
3bnmSPJPolyamine oxidase FMS1/0.444
4a16H34Acetylcholinesterase3.1.1.70.444
1ib0FADNADH-cytochrome b5 reductase 31.6.2.20.443
1q23FUAChloramphenicol acetyltransferase2.3.1.280.443
1zgbA1EAcetylcholinesterase3.1.1.70.443
3kr8XAVTankyrase-22.4.2.300.443
4cax646Glycylpeptide N-tetradecanoyltransferase2.3.1.970.443
3ny8JRZBeta-2 adrenergic receptor/0.443
2pncCLUPrimary amine oxidase, liver isozyme/0.442
4nv10FXFormyl transferase/0.442
1tu8GTXGlutathione S-transferase 22.5.1.180.441
3ksqZ96Protein farnesyltransferase subunit beta2.5.1.580.441
3r8hZOMAldo-keto reductase family 1 member C3/0.441
3d4sTIMBeta-2 adrenergic receptor/0.441
1pj6FOLDimethylglycine oxidase1.5.3.100.440
2w6cBM4Acetylcholinesterase3.1.1.70.440
3hf8ML0Tryptophan 5-hydroxylase 11.14.16.40.440
3hfbML4Tryptophan 5-hydroxylase 11.14.16.40.440
3hmvHBTcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.440
3w5eNVWcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.440
4g2l0WLHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
4n9qFMNFMN-dependent NADH-azoreductase 1/0.440