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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
3ryeUNRFarnesyl pyrophosphate synthase2.5.1.10

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3ryeUNRFarnesyl pyrophosphate synthase2.5.1.101.000
2opmNI9Farnesyl pyrophosphate synthase2.5.1.100.650
3rbmB73Farnesyl pyrophosphate synthase, putative/0.625
1zw5ZOLFarnesyl pyrophosphate synthase2.5.1.100.617
4nkeRISFarnesyl pyrophosphate synthase2.5.1.100.615
3ldwZOLFarnesyl pyrophosphate synthase, putative/0.614
3ez3ZOLFarnesyl pyrophosphate synthase, putative/0.603
1yq7RISFarnesyl pyrophosphate synthase2.5.1.100.596
2f94BFQFarnesyl pyrophosphate synthase2.5.1.100.592
4q23RISFarnesyl pyrophosphate synthase2.5.1.100.585
4lfvYS4Farnesyl pyrophosphate synthase2.5.1.100.577
3ldwIPEFarnesyl pyrophosphate synthase, putative/0.565
2i191BYFarnesyl pyrophosphate synthase/0.561
3dyh721Farnesyl pyrophosphate synthase/0.561
4kqsRISFarnesyl pyrophosphate synthase2.5.1.100.558
3egt722Farnesyl pyrophosphate synthase/0.556
4dwb0M7Farnesyl pyrophosphate synthase/0.556
4dxj0M9Farnesyl pyrophosphate synthase/0.549
4nkeIPEFarnesyl pyrophosphate synthase2.5.1.100.549
1yv5RISFarnesyl pyrophosphate synthase2.5.1.100.546
4kqsIPEFarnesyl pyrophosphate synthase2.5.1.100.543
4lfgIPEPutative geranyltranstransferase/0.542
3rywK9HFarnesyl pyrophosphate synthase, putative/0.537
1rqjRISFarnesyl diphosphate synthase2.5.1.100.527
3ez3IPEFarnesyl pyrophosphate synthase, putative/0.523
3krfIPEGeranyl diphosphate synthase large subunit/0.519
1rqjIPEFarnesyl diphosphate synthase2.5.1.100.505
2opnSUFFarnesyl pyrophosphate synthase2.5.1.100.494
3krfDSTGeranyl diphosphate synthase large subunit/0.494
3oabDSTGeranyl diphosphate synthase large subunit/0.485
4h5eYS4Farnesyl pyrophosphate synthase2.5.1.100.476
5ero210Fusicoccadiene synthase2.5.1.290.470
3iczPB6Farnesyl pyrophosphate synthase/0.469
1sxjAGSReplication factor C subunit 1/0.465
2e91ZOLGeranylgeranyl pyrophosphate synthase/0.464
4demYS4Farnesyl pyrophosphate synthase2.5.1.100.464
1i3lGDUUDP-glucose 4-epimerase/0.462
2e8wIPEGeranylgeranyl pyrophosphate synthase/0.460
2wvmGDDMannosyl-3-phosphogylcerate synthase/0.460
1m2oGNPSmall COPII coat GTPase SAR13.6.50.456
4y9qC2EUncharacterized protein/0.456
3ogxH1SPeptidoglycan recognition protein 1/0.455
3q9lATPSeptum site-determining protein MinD/0.455
4h5dYS4Farnesyl pyrophosphate synthase2.5.1.100.455
1kvsUPGUDP-glucose 4-epimerase5.1.3.20.453
2e8uIPEGeranylgeranyl pyrophosphate synthase/0.453
2x3fAPCPantothenate synthetase/0.453
2o1oRISPutative farnesyl pyrophosphate synthase/0.450
2y882ERPhosphoribosyl isomerase A5.3.1.160.449
2r9eSDXCitrate synthase2.3.3.160.448
3rkuNAPNADP-dependent 3-hydroxy acid dehydrogenase/0.448
1a8rGTPGTP cyclohydrolase 13.5.4.160.447
1u0hGSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.447
1w5tADPORC1-type DNA replication protein 2/0.445
3qttANPPantothenate synthetase/0.444
4dzzADPPlasmid partitioning protein ParF/0.444
4e03ADPPlasmid partitioning protein ParF/0.444
4ga34GAFarnesyl pyrophosphate synthase2.5.1.100.444
4jvj1MVFarnesyl pyrophosphate synthase2.5.1.100.444
1udcUFMUDP-glucose 4-epimerase5.1.3.20.442
4wuoNAD3-isopropylmalate dehydrogenase1.1.1.850.442