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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
4ge1TSSBiogenic amine-binding protein

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4ge1TSSBiogenic amine-binding protein/1.000
3ft8MOJHeat shock protein HSP 90-alpha/0.509
3qiyQI1Botulinum neurotoxin type A3.4.24.690.494
4h9753SDihydrofolate reductase1.5.1.30.490
3t7vSAM3-methylornithine synthase/0.486
1x8b824Wee1-like protein kinase2.7.10.20.482
4yswNAIXanthine dehydrogenase/oxidase/0.481
3zeiAWHO-acetylserine sulfhydrylase/0.480
2isjFMN5,6-dimethylbenzimidazole synthase1.13.11.790.478
3lu8IQXSerum albumin/0.478
2w6oOA3Biotin carboxylase6.3.4.140.477
2wi72KLHeat shock protein HSP 90-alpha/0.476
4v12POGMaoC like domain protein/0.475
2fypRDEEndoplasmin/0.474
4ho8THMGlucose-1-phosphate thymidylyltransferase/0.474
4la0198Serum albumin/0.473
4bqg50QHeat shock protein HSP 90-alpha/0.472
1rx8FOLDihydrofolate reductase1.5.1.30.470
3c35KAIGlutamate receptor ionotropic, kainate 1/0.470
4xr9TMPCalS8/0.470
2pakTYDTDP-4-oxo-6-deoxy-alpha-D-glucose-3,4-oxoisomerase5.3.2.30.468
2x7hPFNProstaglandin reductase 310.468
3p8z36AGenome polyprotein2.1.1.560.468
2vo4GTB2,4-D inducible glutathione S-transferase/0.467
5dstSAHProtein arginine N-methyltransferase 82.1.10.467
2qw034Z4-chlorobenzoyl CoA ligase/0.466
3qdd94MHeat shock protein HSP 90-alpha/0.466
3sptUD1Bifunctional protein GlmU/0.466
3i64DNA2,7-dihydroxy-5-methyl-1-naphthoate 7-O-methyltransferase/0.465
3nnuEDBMitogen-activated protein kinase 14/0.465
4awp99AHeat shock protein HSP 90-alpha/0.465
4fewPP2Aminoglycoside 3'-phosphotransferase AphA1-IAB/0.465
1e8zSTUPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.464
1dtnAPGMandelate racemase/0.463
1hv9UD1Bifunctional protein GlmU/0.463
1u1d181Uridine phosphorylase2.4.2.30.463
2pamTYDTDP-4-oxo-6-deoxy-alpha-D-glucose-3,4-oxoisomerase5.3.2.30.463
2rhrEMOPutative ketoacyl reductase1.3.10.463
4bgbADPPredicted molecular chaperone distantly related to HSP70-fold metalloproteases/0.463
4ho4THMGlucose-1-phosphate thymidylyltransferase/0.463
1i58ACPChemotaxis protein CheA2.7.13.30.462
1i59ADPChemotaxis protein CheA2.7.13.30.462
1lfdGNPGTPase HRas/0.462
2w98P1ZProstaglandin reductase 21.3.1.480.462
4eftEFTHeat shock protein HSP 90-alpha/0.462
1ny5ADPTranscriptional regulator (NtrC family)/0.461
1suiFRECaffeoyl-CoA O-methyltransferase2.1.1.1040.461
2g0nGDPRas-related C3 botulinum toxin substrate 3/0.461
3clrFADElectron transfer flavoprotein subunit alpha/0.461
3dj4UD1Bifunctional protein GlmU/0.461
4fex0TOAminoglycoside 3'-phosphotransferase AphA1-IAB/0.461
4hw319GInduced myeloid leukemia cell differentiation protein Mcl-1/0.461
2v59LZKBiotin carboxylase6.3.4.140.460
3da1FADGlycerol-3-phosphate dehydrogenase/0.460
2acxANPG protein-coupled receptor kinase 62.7.11.160.459
2ga9AGSPoly(A) polymerase catalytic subunit2.7.7.190.459
2ggqTTPDual sugar-1-phosphate nucleotidylyltransferase/0.459
3hub469Mitogen-activated protein kinase 14/0.459
3iw8HIZMitogen-activated protein kinase 14/0.459
4kcfAKMFAD-dependent oxidoreductase/0.459
1bwkFMNNADPH dehydrogenase 11.6.99.10.458
1d7yFADFerredoxin reductase/0.458
1tl7ONMAdenylate cyclase type 2/0.458
1tl7ONMAdenylate cyclase type 5/0.458
2qo9ANPEphrin type-A receptor 32.7.10.10.458
3el7PD3Proto-oncogene tyrosine-protein kinase Src2.7.10.20.458
3qlwN22Dihydrofolate reductase1.5.1.30.458
1tw4CHDFatty acid-binding protein, liver/0.457
2w6qOA5Biotin carboxylase6.3.4.140.457
3qizQI2Botulinum neurotoxin type A3.4.24.690.457
1j7lADPAminoglycoside 3'-phosphotransferase2.7.1.950.456
1qnfHDFDeoxyribodipyrimidine photo-lyase4.1.99.30.456
1rdtL79Retinoic acid receptor RXR-alpha/0.456
1t13INI6,7-dimethyl-8-ribityllumazine synthase 2/0.456
1w2cANPInositol-trisphosphate 3-kinase A2.7.1.1270.456
2h55DZ8Heat shock protein HSP 90-alpha/0.456
2j7t274Serine/threonine-protein kinase 102.7.11.10.456
2p2bPRXAcetyl-coenzyme A synthetase/0.456
2z4sADPChromosomal replication initiator protein DnaA/0.456
3cgyRDCVirulence sensor histidine kinase PhoQ2.7.13.30.456
3jziJZLBiotin carboxylase6.3.4.140.456
3nnxEDDMitogen-activated protein kinase 14/0.456
3pjtC2EDiguanylate cyclase/phosphodiesterase/0.456
4awq592Heat shock protein HSP 90-alpha/0.456
4xivADPChemotaxis protein CheA2.7.13.30.456
1zdfUPGGlycogenin-12.4.1.1860.455
2m56CAMCamphor 5-monooxygenase1.14.15.10.455
3b9lAZZSerum albumin/0.455
3gg0C2EUncharacterized protein/0.455
3k3kA8SAbscisic acid receptor PYR1/0.455
3kr6UD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.455
3ml8ML8Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.455
3zy5GFBGDP-fucose protein O-fucosyltransferase 12.4.1.2210.455
4ii5ADPCyclin-dependent kinase 22.7.11.220.455
1g0rTHMGlucose-1-phosphate thymidylyltransferase/0.454
1nooCAHCamphor 5-monooxygenase1.14.15.10.454
1q1rFADPutidaredoxin reductase1.18.1.50.454
2w71L23Biotin carboxylase6.3.4.140.454
3cr7PPSAdenylyl-sulfate kinase2.7.1.250.454
3crzFADFerredoxin--NADP+ reductase/0.454
3eel53TUncharacterized protein/0.454
3qaqQAQPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.454
4n6hEJ4Delta-type opioid receptor/0.454
4u0oMTALipoyl synthase 2/0.454
2z97CAMCamphor 5-monooxygenase1.14.15.10.453
3fwiCAMCamphor 5-monooxygenase1.14.15.10.453
4ap0ADPKinesin-like protein KIF11/0.453
1i59ANPChemotaxis protein CheA2.7.13.30.452
1i5bANPChemotaxis protein CheA2.7.13.30.452
3gcuR48Mitogen-activated protein kinase 14/0.452
3t9aANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2/0.452
3uovFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.452
4c9oCAMCytochrome P450/0.452
4l4fCAMCamphor 5-monooxygenase1.14.15.10.452
4lsl1YQGag-Pol polyprotein2.7.7.490.452
4lv8ADPRhoptry protein 5 C/0.452
1suoCPZCytochrome P450 2B41.14.14.10.451
1w7h3IPMitogen-activated protein kinase 14/0.451
1ygkRRCPyridoxal kinase2.7.1.350.451
3d83GK6Mitogen-activated protein kinase 14/0.451
3eek53SUncharacterized protein/0.451
3q2jCKIAminoglycoside 3'-phosphotransferase2.7.1.950.451
1ii6ADPKinesin-like protein KIF11/0.450
1pg3PRXAcetyl-coenzyme A synthetase/0.450
1w2dADPInositol-trisphosphate 3-kinase A2.7.1.1270.450
2a19ANPInterferon-induced, double-stranded RNA-activated protein kinase2.7.11.10.450
2gfsPQBMitogen-activated protein kinase 14/0.450
2j0sANPEukaryotic initiation factor 4A-III3.6.4.130.450
2qboCAMCamphor 5-monooxygenase1.14.15.10.450
2xpkZ0MO-GlcNAcase NagJ/0.450
3ad9NADSubunit alpha of sarocosine oxidase/0.450
3eej53RUncharacterized protein/0.450
3hv4L51Mitogen-activated protein kinase 14/0.450
3mnrSD1Heat shock protein HSP 90-alpha/0.450
3nl6TPSUncharacterized protein/0.450
3p79P79Mitogen-activated protein kinase 14/0.450
4dxaGSPRas-related protein Rap-1b/0.450
4kf1HT5Aryldialkylphosphatase3.1.8.10.450
1mraAPGMandelate racemase/0.449
1uycPU7Heat shock protein HSP 90-alpha/0.449
2az3CDPNucleoside diphosphate kinase/0.449
3adaNADSubunit alpha of sarocosine oxidase/0.449
3gc9B45Mitogen-activated protein kinase 112.7.11.240.449
3irm1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.449
3oafOAGDihydrofolate reductase1.5.1.30.449
4c77N01Phenylacetone monooxygenase1.14.13.920.449
4elb34RDihydrofolate reductase/0.449
4ij117CAnthranilate phosphoribosyltransferase/0.449
4loh1SYStimulator of interferon genes protein/0.449
1fxoTMPGlucose-1-phosphate thymidylyltransferase/0.448
1l8qADPChromosomal replication initiator protein DnaA/0.448
1onpFOM1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.448
1yrdCAMCamphor 5-monooxygenase1.14.15.10.448
2bo7GDPMannosylglycerate synthase/0.448
3ae4FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial/0.448
3fgoCZASarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.448
4af3VX6Aurora kinase B2.7.11.10.448
4g3pUD1Bifunctional protein GlmU/0.448
4g3rCAMCamphor 5-monooxygenase1.14.15.10.448
6cp4CAMCamphor 5-monooxygenase1.14.15.10.448
1zzlTZYMitogen-activated protein kinase 14/0.447
2o65MYFSerine/threonine-protein kinase pim-12.7.11.10.447
3cluFADElectron transfer flavoprotein subunit alpha/0.447
3inxJZCHeat shock protein HSP 90-alpha/0.447
3npcB96Mitogen-activated protein kinase 92.7.11.240.447
3oom507Activin receptor type-12.7.11.300.447
4h4qFADBiphenyl dioxygenase ferredoxin reductase subunit/0.447
4iji99TGlutathione S-transferase-like protein YibF/0.447
4l9i8PRRhodopsin kinase/0.447
4l9kEHFSerum albumin/0.447
4lgaA2OAbscisic acid receptor PYL2/0.447
1i2lDCSAminodeoxychorismate lyase4.1.3.380.446
1towCRZFatty acid-binding protein, adipocyte/0.446
2eauCZASarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.446
2nomDUTPoly(A) polymerase, putative/0.446
2oapANPType II secretion system protein (GspE-2)/0.446
3lfeZ84Mitogen-activated protein kinase 14/0.446
3sa0NRAMitogen-activated protein kinase 12.7.11.240.446
3w2cN15Aurora kinase A2.7.11.10.446
4jseQJ2Nitric oxide synthase, brain1.14.13.390.446
4kfbT27Gag-Pol polyprotein2.7.7.490.446
4ldkFADFAD-linked sulfhydryl oxidase ALR1.8.3.20.446
4mv1ADPBiotin carboxylase6.3.4.140.446
3qakUKAAdenosine receptor A2a/0.446
1dajMOTDihydrofolate reductase1.5.1.30.445
1wbwLI4Mitogen-activated protein kinase 14/0.445
2p1u4TNRetinoic acid receptor RXR-alpha/0.445
3d8vUD1Bifunctional protein GlmU/0.445
4bewCZASarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.445
1nq24HYThyroid hormone receptor beta/0.444
1nzdUPGDNA beta-glucosyltransferase/0.444
1phePIYCamphor 5-monooxygenase1.14.15.10.444
2gzl2AA2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase4.6.1.120.444
2w6mOA1Biotin carboxylase6.3.4.140.444
2weyEV1cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.444
3at4CCKCasein kinase II subunit alpha2.7.11.10.444
3epyCOAAcyl-CoA-binding domain-containing protein 7/0.444
3g4lROFcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.444
3k3jF4CMitogen-activated protein kinase 14/0.444
3q5lKX2Heat shock protein 83-1/0.444
4g3qUD1Bifunctional protein GlmU/0.444
4i8vBHFCytochrome P450 1A11.14.14.10.444
4k9yK9YFocal adhesion kinase 12.7.10.20.444
4ndnSAMS-adenosylmethionine synthase isoform type-22.5.1.60.444
1dz6CAMCamphor 5-monooxygenase1.14.15.10.443
1p16GTPmRNA-capping enzyme subunit alpha2.7.7.500.443
2chx090Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
2ewaSB2Mitogen-activated protein kinase 14/0.443
3i0pNADMalate dehydrogenase, putative/0.443
4awiAQ2Mitogen-activated protein kinase 82.7.11.240.443
4m8e29VRetinoic acid receptor RXR-alpha/0.443
5d7q4I5NAD-dependent protein deacetylase sirtuin-23.5.10.443
1cqp803Integrin alpha-L/0.442
1kt3RTLRetinol-binding protein 4/0.442
1mabADPATP synthase subunit beta, mitochondrial3.6.3.140.442
1ygjRMCPyridoxal kinase2.7.1.350.442
2a1nCAMCamphor 5-monooxygenase1.14.15.10.442
2bakAQZMitogen-activated protein kinase 14/0.442
2iskFNR5,6-dimethylbenzimidazole synthase1.13.11.790.442
2jizANPATP synthase subunit beta, mitochondrial3.6.3.140.442
2jn3JN3Fatty acid-binding protein, liver/0.442
3lnv1ZZSaframycin Mx1 synthetase B/0.442
3nxuRITCytochrome P450 3A4/0.442
3pjuC2EDiguanylate cyclase/phosphodiesterase/0.442
3zonIK1Non-receptor tyrosine-protein kinase TYK22.7.10.20.442
3zs5SB2Mitogen-activated protein kinase 14/0.442
4a9yAQZMitogen-activated protein kinase 14/0.442
4jhz1KVBeta-glucuronidase3.2.1.310.442
4lb2DM5Serum albumin/0.442
4p6xHCYGlucocorticoid receptor/0.442
4ryvZEAProtein LlR18A/0.442
5kf1ACOPredicted acetyltransferase/0.442
1mf0GDPAdenylosuccinate synthetase isozyme 1/0.441
1uaeUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.441
2hchN5AEndoplasmin/0.441
2v58LZJBiotin carboxylase6.3.4.140.441
2yx1SFGtRNA (guanine(37)-N1)-methyltransferase Trm5b2.1.1.2280.441
3fcoIIGCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.441
3g8dADPBiotin carboxylase6.3.4.140.441
3irn1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.441
3kq7KQ7Mitogen-activated protein kinase 14/0.441
3ugc046Tyrosine-protein kinase JAK2/0.441
4bgiNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.441
4ezk0SDPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
4nwiCTN7-methylguanosine phosphate-specific 5'-nucleotidase/0.441
1ci7CB3Thymidylate synthase2.1.1.450.440
1kzjCB3Thymidylate synthase/0.440
1lcoPPYCytochrome b2, mitochondrial1.1.2.30.440
1p44NADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.440
2jj2ANPATP synthase subunit beta, mitochondrial3.6.3.140.440
2v3aFADRubredoxin-NAD(+) reductase1.18.1.10.440
2x86ADPADP-L-glycero-D-manno-heptose-6-epimerase/0.440
3e9319BMitogen-activated protein kinase 14/0.440
3gwuSRENa(+):neurotransmitter symporter (Snf family)/0.440
3hz137DHeat shock protein HSP 90-alpha/0.440
3qlxQLRUncharacterized protein/0.440
3u8hBHPPhospholipase A2, membrane associated/0.440
4dscA8SAbscisic acid receptor PYL3/0.440
4iakADPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.440
4l4cCAMCamphor 5-monooxygenase1.14.15.10.440
4y6nUPGGlucosyl-3-phosphoglycerate synthase2.4.1.2660.440
5awmANPStress-activated protein kinase JNK2.7.11.240.440
5c03AGSNon-receptor tyrosine-protein kinase TYK22.7.10.20.440