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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
3zzhNLGProtein ARG5,6, mitochondrial2.7.2.8

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3zzhNLGProtein ARG5,6, mitochondrial2.7.2.81.000
3zzfNLGProtein ARG5,6, mitochondrial2.7.2.80.583
2rd5NLGAcetylglutamate kinase, chloroplastic2.7.2.80.498
1ib0NADNADH-cytochrome b5 reductase 31.6.2.20.484
1qm5PLPMaltodextrin phosphorylase2.4.1.10.484
1nlmUD1UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase/0.482
4dpuAGSMevalonate diphosphate decarboxylase/0.475
1il0NADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.470
1sb8UD2WbpP/0.469
3r9iADPSeptum site-determining protein MinD/0.466
1xkvATPPhosphoenolpyruvate carboxykinase (ATP)/0.464
3hlwCE3Beta-lactamase/0.464
1a9zUPGUDP-glucose 4-epimerase5.1.3.20.461
2c92TP66,7-dimethyl-8-ribityllumazine synthase2.5.1.780.461
1h65GDPTranslocase of chloroplast 343.6.50.458
1qr6NADNAD-dependent malic enzyme, mitochondrial1.1.1.380.458
4brgGNPEctonucleoside triphosphate diphosphohydrolase I/0.457
1okkGCPSignal recognition particle protein/0.456
1okkGCPSignal recognition particle receptor FtsY/0.456
3ru9NADUDP-N-acetylglucosamine 4-epimerase/0.456
4lcjNADC-terminal-binding protein 2/0.456
1hkuNADC-terminal-binding protein 11.1.10.455
3s87ADPRibonucleoside-diphosphate reductase large chain 11.17.4.10.454
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.454
4y9lFADAcyl-CoA dehydrogenase family member 11/0.454
3ryhGTPTubulin alpha chain/0.453
1hzjUD1UDP-glucose 4-epimerase/0.452
2b4tAESGlyceraldehyde-3-phosphate dehydrogenase/0.452
2jkvNAP6-phosphogluconate dehydrogenase, decarboxylating1.1.1.440.452
1icuFMNOxygen-insensitive NAD(P)H nitroreductase/0.451
2zshGA3Gibberellin receptor GID1A30.450
4bb3KKAIsopenicillin N synthase1.21.3.10.450
2cftPLPPyridoxal phosphate phosphatase/0.449
3e39FMNNitroreductase/0.447
4i8x6P3L-lactate dehydrogenase A chain1.1.1.270.447
3h3qH13Collagen type IV alpha-3-binding protein/0.446
4lj9ACPChaperone protein ClpB/0.446
2il2LIXRenin3.4.23.150.445
2qujTYMTryptophan--tRNA ligase, cytoplasmic6.1.1.20.445
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.445
4m4922YL-lactate dehydrogenase A chain1.1.1.270.445
2ex1C5PAlpha-2,3/2,6-sialyltransferase/sialidase/0.444
3tjzGNPADP-ribosylation factor 1/0.444
2xtzGSPGuanine nucleotide-binding protein alpha-1 subunit/0.443
3qt62P0Mevalonate diphosphate decarboxylase/0.443
3zkbANPDNA gyrase subunit B/0.443
4tv9GTPTubulin alpha-1B chain/0.443
5ftfADPTPR domain protein/0.443
2dpxGDPGTP-binding protein RAD/0.442
2r7pANPNon-structural protein 23.6.40.442
3w2eNADNADH-cytochrome b5 reductase 31.6.2.20.442
2omeNADC-terminal-binding protein 2/0.441
3hyoADPPyridoxal kinase/0.441
4kp5E1FCarbonic anhydrase 124.2.1.10.441
4zolGTPTubulin alpha-1B chain/0.441
2zvcSAHPrecorrin-3 C17-methyltransferase/0.440
4dptAGSMevalonate diphosphate decarboxylase/0.440
4hiaFMNLOV protein/0.440
4yqfGDPSeptin-9/0.440