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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
3cgyRDCVirulence sensor histidine kinase PhoQ2.7.13.3

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3cgyRDCVirulence sensor histidine kinase PhoQ2.7.13.31.000
1pkfEPDEpothilone C/D epoxidase1.140.493
1q5dEPBEpothilone C/D epoxidase1.140.480
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.479
2yac937Serine/threonine-protein kinase PLK12.7.11.210.472
4eufNADTrans-2-enoyl-CoA reductase [NADH]/0.471
1pqc444Oxysterols receptor LXR-beta/0.468
2po7CHDFerrochelatase, mitochondrial4.99.1.10.468
1xddAAYIntegrin alpha-L/0.467
3gncQQQGlutaryl-CoA dehydrogenase/0.467
2qd4CHDFerrochelatase, mitochondrial4.99.1.10.465
4i6f1C7Serine/threonine-protein kinase PLK22.7.11.210.465
4bfxZVXPantothenate kinase2.7.1.330.464
1jraFADFAD-linked sulfhydryl oxidase ERV21.8.3.20.462
2xkeWI2Serine/threonine-protein kinase Nek22.7.11.10.462
4b65FADL-ornithine N(5)-monooxygenase/0.461
3dgeADPSensor histidine kinase/0.460
3tdaPN0Cytochrome P450 2D6/0.460
1bzfTMQDihydrofolate reductase1.5.1.30.459
2ewaSB2Mitogen-activated protein kinase 14/0.459
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.459
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.458
4i6h1C8Serine/threonine-protein kinase PLK22.7.11.210.458
1t13INI6,7-dimethyl-8-ribityllumazine synthase 2/0.457
2rkuR78Serine/threonine-protein kinase PLK12.7.11.210.457
3p9tTCLRepressor/0.457
2pnjCHDFerrochelatase, mitochondrial4.99.1.10.456
2vn0TDZCytochrome P450 2C8/0.456
3uleC69Actin-related protein 3/0.456
4a4o664Serine/threonine-protein kinase PLK12.7.11.210.453
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.452
2p1v5TNRetinoic acid receptor RXR-alpha/0.452
4j531J4Serine/threonine-protein kinase PLK12.7.11.210.452
1f8gNADNAD(P) transhydrogenase subunit alpha part 11.6.1.20.450
2xf3J01Uncharacterized protein/0.450
3t5iSER_SER_CMT_FARRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.449
3zkyWT4Isopenicillin N synthase1.21.3.10.449
4a83DXCMajor pollen allergen Bet v 1-A/0.449
4qemHC4Phospholipase A2 VRV-PL-VIIIa/0.449
4zhiADPKinesin-like protein KIF11/0.449
1w7h3IPMitogen-activated protein kinase 14/0.448
4a4l939Serine/threonine-protein kinase PLK12.7.11.210.448
1fm69CRRetinoic acid receptor RXR-alpha/0.447
2owb626Serine/threonine-protein kinase PLK12.7.11.210.447
1c3x8IGPurine nucleoside phosphorylase2.4.2.10.446
2j3jHC4NADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.446
3atzFMNProstaglandin F2a synthase/0.446
3bi5FADPolyamine oxidase FMS1/0.446
3jwcEKBDihydrofolate reductase/0.446
3lfeZ84Mitogen-activated protein kinase 14/0.446
1kzjCB3Thymidylate synthase/0.445
1pq944BOxysterols receptor LXR-beta/0.445
1rgsCMPcAMP-dependent protein kinase type I-alpha regulatory subunit/0.445
3nrrD16Bifunctional dihydrofolate reductase-thymidylate synthase/0.445
4rh10TTSpore photoproduct lyase/0.445
1fmlRTLRetinol dehydratase/0.444
2vnkFADNADPH:ferredoxin reductase/0.444
2x9vTMQPteridine reductase/0.444
3w1wCHDFerrochelatase, mitochondrial4.99.1.10.444
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.444
4itmATPTetraacyldisaccharide 4'-kinase/0.444
4m2xTMQDihydrofolate reductase1.5.1.30.444
1ppjANYCytochrome b/0.443
2wqoVGKSerine/threonine-protein kinase Nek22.7.11.10.443
3c0g3AMPeripheral plasma membrane protein CASK2.7.11.10.443
3l0lHC3Nuclear receptor ROR-gamma/0.443
5jy1NADPutative short-chain dehydrogenase/reductase/0.443
1i59ADPChemotaxis protein CheA2.7.13.30.442
3bi6396Wee1-like protein kinase2.7.10.20.442
3ds6A17Mitogen-activated protein kinase 14/0.442
3qm4PN0Cytochrome P450 2D6/0.442
4b12C23Glycylpeptide N-tetradecanoyltransferase/0.442
4jlk1NODeoxycytidine kinase2.7.1.740.442
4jv81M1Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.442
4o4eATPKinase/0.442
4rbs0RVMetallo-beta-lactamase type 2/0.442
4u0oMTALipoyl synthase 2/0.442
1i59ANPChemotaxis protein CheA2.7.13.30.441
3vf60H6Glucokinase2.7.1.20.441
4cvmANPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase/0.441
4fhd0TTSpore photoproduct lyase/0.441
2in6839Wee1-like protein kinase2.7.10.20.440
2xc3RT8Steroid C26-monooxygenase1.14.13.1410.440
3fsjD7KBenzoylformate decarboxylase4.1.1.70.440
4biwANPSensor histidine kinase CpxA/0.440
4jlj1NMDeoxycytidine kinase2.7.1.740.440