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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
3gncQQQGlutaryl-CoA dehydrogenase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3gncQQQGlutaryl-CoA dehydrogenase/1.000
3eon341Glutaryl-CoA dehydrogenase/0.566
1xddAAYIntegrin alpha-L/0.509
4g7gVFVLanosterol 14-alpha-demethylase/0.485
2yj5ATPCopper-transporting ATPase/0.482
4cvmANPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase/0.475
4g3jVNTLanosterol 14-alpha-demethylase/0.473
4isg1FYGlucokinase2.7.1.20.473
3jyoNADQuinate/shikimate dehydrogenase (NAD(+))/0.468
2uxoTACHTH-type transcriptional regulator TtgR/0.463
1q0zAKAAclacinomycin methylesterase RdmC3.1.1.950.462
3gw9VNILanosterol 14-alpha-demethylase/0.462
4bfxZVXPantothenate kinase2.7.1.330.460
3l6jZ90Alr2278 protein/0.459
4bfzZVZPantothenate kinase2.7.1.330.458
4xbjIN5Alanine racemase, biosynthetic/0.456
3h3t16HCollagen type IV alpha-3-binding protein/0.455
4dch4DCGlucokinase2.7.1.20.455
3vf60H6Glucokinase2.7.1.20.453
3zoiM2WIsopenicillin N synthase1.21.3.10.453
1c7oPPGHemolysin/0.452
1obnASVIsopenicillin N synthase1.21.3.10.451
2y60M8FIsopenicillin N synthase1.21.3.10.451
3h3r14HCollagen type IV alpha-3-binding protein/0.451
3ggs2FDPurine nucleoside phosphorylase2.4.2.10.449
2clfF6FTryptophan synthase alpha chain/0.448
4b13X25Glycylpeptide N-tetradecanoyltransferase/0.448
1cqp803Integrin alpha-L/0.447
2e99B08Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.447
4jqh1MFAlr2278 protein/0.447
2hpsCTZCa2+-triggered coelenterazine-binding protein 1/0.445
2rqfJH3Hemolymph juvenile hormone binding protein/0.445
3sl2ATPSensor histidine kinase WalK/0.445
4a83DXCMajor pollen allergen Bet v 1-A/0.445
1ygkRRCPyridoxal kinase2.7.1.350.444
3cmfPDN3-oxo-5-beta-steroid 4-dehydrogenase/0.444
4f4dCHDFerrochelatase, mitochondrial4.99.1.10.444
4x7uZM3Mycinamicin III 3''-O-methyltransferase2.1.1.2370.444
2obxINI6,7-dimethyl-8-ribityllumazine synthase 22.5.1.780.443
1kyxCRM6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.442
2vn1FK5Peptidylprolyl isomerase/0.442
3jypNADQuinate/shikimate dehydrogenase (NAD(+))/0.442
3nmpPYVAbscisic acid receptor PYL2/0.442
2po7CHDFerrochelatase, mitochondrial4.99.1.10.441
2xviFADPutative flavin-containing monooxygenase/0.441
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.441
4q0kGA3Phytohormone-binding protein/0.441
4x7zZM3Mycinamicin III 3''-O-methyltransferase2.1.1.2370.441
2gevCOKPantothenate kinase2.7.1.330.440
2ktdPUCProstaglandin-H2 D-isomerase5.3.99.20.440
3ziaADPATP synthase subunit beta, mitochondrial3.6.3.140.440
4ipw1G7Mycocyclosin synthase1.14.21.90.440
4rh10TTSpore photoproduct lyase/0.440