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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
1ga8UPFLgtC

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
1ga8UPFLgtC/1.000
1g9rUPFLgtC/0.706
1ss9UPFLgtC/0.508
4s1iPLPPyridoxal kinase, putative/0.497
1coyANDCholesterol oxidase1.1.3.60.496
3vmmP0DAlanine--anticapsin ligase/0.494
4an4DUDPutative glycosyl transferase/0.492
3i5xANPATP-dependent RNA helicase MSS116, mitochondrial3.6.4.130.490
3sqxANPATP-dependent RNA helicase MSS116, mitochondrial3.6.4.130.490
2gqrADPPhosphoribosylaminoimidazole-succinocarboxamide synthase6.3.2.60.487
3sqwANPATP-dependent RNA helicase MSS116, mitochondrial3.6.4.130.486
2zshGA3Gibberellin receptor GID1A30.482
3eblGA4Gibberellin receptor GID1/0.482
4cjp4D2Integrase/0.480
1ao05GPAmidophosphoribosyltransferase/0.479
2vigFADShort-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.10.478
4dc0NDPPutative ketoacyl reductase1.3.10.478
3u2xASOGlycogenin-12.4.1.1860.477
2a9z26AAdenosine kinase2.7.1.200.474
2hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.473
1mewXMPInosine-5'-monophosphate dehydrogenase/0.471
3cehAVEGlycogen phosphorylase, liver form2.4.1.10.470
3ed1GA3Gibberellin receptor GID1/0.470
3fhxPLPPyridoxal kinase2.7.1.350.468
4b45GSPTubulin-like protein CetZ2/0.468
2impNAILactaldehyde dehydrogenase1.2.1.220.467
4aw0ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.467
4hjfC2EGGDEF family protein/0.467
4hyh1AMSerine/threonine-protein kinase Chk12.7.11.10.467
4z9rFMNOmega-3 polyunsaturated fatty acid synthase subunit PfaD/0.467
1hfqMOTDihydrofolate reductase1.5.1.30.466
1q6yCOAFormyl-CoA:oxalate CoA-transferase/0.464
2b35TCLEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.464
2ji9TPWOxalyl-CoA decarboxylase4.1.1.80.464
3uicNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.464
4bqsK2QShikimate kinase2.7.1.710.463
2ehuNAD1-pyrroline-5-carboxylate dehydrogenase/0.462
2wxvWXVCyclin-dependent kinase 22.7.11.220.462
2w3aTOPDihydrofolate reductase1.5.1.30.461
1hb3SCVIsopenicillin N synthase1.21.3.10.460
3a8wATPProtein kinase C iota type2.7.11.130.460
3nmpPYVAbscisic acid receptor PYL2/0.460
4fhd0TTSpore photoproduct lyase/0.460
1mv8GDXGDP-mannose 6-dehydrogenase1.1.1.1320.459
1nvqUCNSerine/threonine-protein kinase Chk12.7.11.10.459
3pce3HPProtocatechuate 3,4-dioxygenase alpha chain1.13.11.30.459
3pce3HPProtocatechuate 3,4-dioxygenase beta chain1.13.11.30.459
3u2mFADFAD-linked sulfhydryl oxidase ALR1.8.3.20.459
4gr9372Ribosyldihydronicotinamide dehydrogenase [quinone]/0.459
4z63ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.459
2bzsCB1Ribosyldihydronicotinamide dehydrogenase [quinone]/0.458
2vkdUPGCytotoxin L/0.458
2xf3J01Uncharacterized protein/0.458
3uk6ADPRuvB-like 23.6.4.120.458
4jlm1NNDeoxycytidine kinase2.7.1.740.458
4l5b1UXDeoxycytidine kinase2.7.1.740.458
1z1fSTLResveratrol synthase/0.457
3fr28CAFatty acid-binding protein, adipocyte/0.457
3fr4F8AFatty acid-binding protein, adipocyte/0.457
4bqzGNPEctonucleoside triphosphate diphosphohydrolase 2/0.457
4kq1U5PGlycogen [starch] synthase/0.457
4lpb1YPDNA topoisomerase 4 subunit B/0.457
4uocNCNCinA-like protein/0.457
4yekTHMThymidine phosphorylase/0.457
1o2eANNPhospholipase A23.1.1.40.456
2f2sCOAAcetyl-CoA acetyltransferase, mitochondrial2.3.1.90.456
2xj2985Serine/threonine-protein kinase pim-12.7.11.10.456
2zkjADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.456
3fhxPXLPyridoxal kinase2.7.1.350.456
3ldoANP78 kDa glucose-regulated protein/0.456
3ndcSAHPrecorrin-4 C(11)-methyltransferase2.1.1.1330.456
3otwCOAPhosphopantetheine adenylyltransferase/0.456
3qv1NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic1.2.1.130.456
4bfvZVVPantothenate kinase2.7.1.330.456
4kp71UQ1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic1.1.1.2670.456
4xnhACON-terminal acetyltransferase A complex subunit NAT52.3.10.456
1cs4FOKAdenylate cyclase type 2/0.455
1cs4FOKAdenylate cyclase type 5/0.455
1jbpADPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.455
1n2jPAFPantothenate synthetase6.3.2.10.455
1yreCOAUncharacterized protein/0.455
2dxxSAHDiphthine synthase/0.455
2phkATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform2.7.11.190.455
2v2zCDM4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.455
4z5wILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.455
1f8gNADNAD(P) transhydrogenase subunit alpha part 11.6.1.20.454
1jqiCAAShort-chain specific acyl-CoA dehydrogenase, mitochondrial/0.454
1zrzBI1Protein kinase C iota type2.7.11.130.454
3dhbC6LN-acyl homoserine lactonase AiiA3.1.1.810.454
3rdoBTNStreptavidin/0.454
3u9n09HSerine/threonine-protein kinase Chk12.7.11.10.454
1f17NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.453
1tu8GTXGlutathione S-transferase 22.5.1.180.453
2pmnK51Protein kinase 7/0.453
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.453
3ec7NADInositol 2-dehydrogenase/0.453
3lqfNADGalactitol dehydrogenase/0.453
3p0fBAUUridine phosphorylase 22.4.2.30.453
4jx1CAHCamphor 5-monooxygenase1.14.15.10.453
4ntcFADThioredoxin reductase gliT/0.453
4oe4NADDelta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial1.2.1.880.453
1zys199Serine/threonine-protein kinase Chk12.7.11.10.452
2g1m4HGEgl nine homolog 1/0.452
2jibTPPOxalyl-CoA decarboxylase4.1.1.80.452
2ym8YM8Serine/threonine-protein kinase Chk12.7.11.10.452
2zvbSAHPrecorrin-3 C17-methyltransferase/0.452
3cb2GDPTubulin gamma-1 chain/0.452
3jzmATPCircadian clock protein kinase KaiC2.7.11.10.452
3zdfNADGlyceraldehyde-3-phosphate dehydrogenase/0.452
4mv3ACPBiotin carboxylase6.3.4.140.452
4pk4ADPUnconventional myosin-VI/0.452
2r0pK2CPutative FAD-monooxygenase/0.451
4c34STUcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.451
1db56INPhospholipase A2, membrane associated/0.450
2rqfJH3Hemolymph juvenile hormone binding protein/0.450
3nxrD2DDihydrofolate reductase1.5.1.30.450
3oqfS51Renin3.4.23.150.450
4anuEM7Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.450
4gncASORegucalcin3.1.1.170.450
4itmATPTetraacyldisaccharide 4'-kinase/0.450
4u8iFDAUDP-galactopyranose mutase/0.450
5cwa0GAAnthranilate synthase component 14.1.3.270.450
1h83FADPolyamine oxidase1.5.3.140.449
1rp7TZDPyruvate dehydrogenase E1 component1.2.4.10.449
2b365PPEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.449
2ejzSAHDiphthine synthase/0.449
2wpa889Cyclin-dependent kinase 22.7.11.220.449
3csoXNIGenome polyprotein2.7.7.480.449
3fzm3GOHeat shock cognate 71 kDa protein/0.449
3golXNDGenome polyprotein2.7.7.480.449
3gonANPPhosphomevalonate kinase/0.449
3h4vNAPPteridine reductase 11.5.1.330.449
4jin1L7RIO-type serine/threonine-protein kinase Rio12.7.11.10.449
1f28UMPThymidylate synthase2.1.1.450.448
2fypRDEEndoplasmin/0.448
2iviACWIsopenicillin N synthase1.21.3.10.448
3co93MSGenome polyprotein2.7.7.480.448
3gwuSRENa(+):neurotransmitter symporter (Snf family)/0.448
3n7uNADFormate dehydrogenase, chloroplastic/mitochondrial/0.448
3oafOAGDihydrofolate reductase1.5.1.30.448
4l4fCAMCamphor 5-monooxygenase1.14.15.10.448
3vw7VPXProteinase-activated receptor 1/0.448
1db48INPhospholipase A2, membrane associated/0.447
1o5rFR9Adenosine deaminase3.5.4.40.447
2dvoITTdITP/XTP pyrophosphatase3.6.1.190.447
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.447
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.447
3jpuTY4Transcriptional activator protein LasR/0.447
3koyZ97D-ornithine 4,5-aminomutase subunit beta/0.447
3p2oNADBifunctional protein FolD/0.447
3tkiS25Serine/threonine-protein kinase Chk12.7.11.10.447
4hnhNAPNAD-dependent epimerase/dehydratase/0.447
1dgmADNAdenosine kinase2.7.1.200.446
2f6rACOBifunctional coenzyme A synthase/0.446
2othNIMBasic phospholipase A2 VRV-PL-VIIIa3.1.1.40.446
2x7eX7EKinesin-like protein KIF11/0.446
3iogSDFMetallo-beta-lactamase type 2/0.446
3rupADPBiotin carboxylase6.3.4.140.446
3tk0FADFAD-linked sulfhydryl oxidase ALR1.8.3.20.446
4aosNAPSteroid monooxygenase/0.446
4ehyADPTetraacyldisaccharide 4'-kinase/0.446
4eqxFADCoenzyme A disulfide reductase/0.446
4mxoDB8Proto-oncogene tyrosine-protein kinase Src2.7.10.20.446
1g0rTHMGlucose-1-phosphate thymidylyltransferase/0.445
1kquBR4Phospholipase A2, membrane associated/0.445
1q0bNATKinesin-like protein KIF11/0.445
1x1cSAHC-20 methyltransferase/0.445
2jih097A disintegrin and metalloproteinase with thrombospondin motifs 13.4.240.445
2qzsADPGlycogen synthase2.4.1.210.445
2wecPP5Penicillopepsin-13.4.23.200.445
3bhtMFRCyclin-dependent kinase 22.7.11.220.445
3g4gD71cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.445
3p3c3P3UDP-3-O-acyl-N-acetylglucosamine deacetylase/0.445
3pdnSFGHistone-lysine N-methyltransferase SMYD32.1.1.430.445
3qen5BTDeoxycytidine kinase2.7.1.740.445
3wb2YGPUncharacterized protein MJ0488/0.445
4j8tDOGUncharacterized PhzA/B-like protein PA3332/0.445
4npt017Protease/0.445
4twnB96Ephrin type-A receptor 32.7.10.10.445
4zlaBESCytosol aminopeptidase3.4.11.10.445
5fm7ADPRuvB-like helicase/0.445
5hes032Mitogen-activated protein kinase kinase kinase 202.7.11.250.445
1sepBIOSepiapterin reductase1.1.1.1530.444
1towCRZFatty acid-binding protein, adipocyte/0.444
2j9gANPBiotin carboxylase6.3.4.140.444
2zcePYLPyrrolysine--tRNA ligase/0.444
3a0tADPSensor histidine kinase/0.444
3clbTMQBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.444
3ke8EIP4-hydroxy-3-methylbut-2-enyl diphosphate reductase/0.444
3mflDHYProtocatechuate 3,4-dioxygenase alpha chain1.13.11.30.444
3mflDHYProtocatechuate 3,4-dioxygenase beta chain1.13.11.30.444
3nxoD2BDihydrofolate reductase1.5.1.30.444
3ukrCKHActin-related protein 3/0.444
3ukrCKHActin-related protein 2/0.444
1u1cBAUUridine phosphorylase2.4.2.30.443
2ab8MTPAdenosine kinase2.7.1.200.443
2an9GDPGuanylate kinase2.7.4.80.443
2bbwGP5Adenylate kinase 4, mitochondrial/0.443
2g226IGRenin3.4.23.150.443
2hl2SSAThreonine--tRNA ligase6.1.1.30.443
2rlcCHDCholoylglycine hydrolase3.5.1.240.443
3juqAJDPhenazine biosynthesis protein A/B/0.443
4cdmFO1Deoxyribodipyrimidine photolyase/0.443
4z24FADPutative GMC-type oxidoreductase R13510.443
5djtFMNNPH1-2/0.443
1b2lNDCAlcohol dehydrogenase1.1.1.10.442
1dljUGAUDP-glucose 6-dehydrogenase/0.442
1svmATPLarge T antigen3.6.40.442
2a57CRM6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.442
2bb3SAHCobalamin biosynthesis precorrin-6Y methylase (CbiE)/0.442
2bi4NADLactaldehyde reductase1.1.1.770.442
2cgv3B3Serine/threonine-protein kinase Chk12.7.11.10.442
2d4h5GPGuanylate-binding protein 1/0.442
2is0I03Beta-secretase 13.4.23.460.442
2pchSAHDiphthine synthase/0.442
2xyuQ9GEphrin type-A receptor 42.7.10.10.442
2zi53L1Deoxycytidine kinase2.7.1.740.442
3ag6PAJPantothenate synthetase/0.442
3akm11DFatty acid-binding protein, intestinal/0.442
3c36KAIGlutamate receptor ionotropic, kainate 1/0.442
3e2sFADBifunctional protein PutA1.5.5.20.442
3njuANNAcidic phospholipase A2 33.1.1.40.442
3nxyD2HDihydrofolate reductase1.5.1.30.442
3p5kP5KMitogen-activated protein kinase 14/0.442
3rqhB6PADP-dependent (S)-NAD(P)H-hydrate dehydratase/0.442
3u9eCOALmo1369 protein/0.442
3zc5W9ZHepatocyte growth factor receptor2.7.10.10.442
4b4vL34Bifunctional protein FolD/0.442
4bfwZVWPantothenate kinase2.7.1.330.442
4c6zTLE3-oxoacyl-ACP synthase/0.442
4isg1FYGlucokinase2.7.1.20.442
4la7A1OAbscisic acid receptor PYL2/0.442
1cbfSAHCobalt-precorrin-4 C(11)-methyltransferase2.1.1.2710.441
1gd1NADGlyceraldehyde-3-phosphate dehydrogenase/0.441
1ivrCBAAspartate aminotransferase, mitochondrial2.6.1.10.441
1k27MTMS-methyl-5'-thioadenosine phosphorylase/0.441
1kqnNADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.441
1nvsUCMSerine/threonine-protein kinase Chk12.7.11.10.441
2eeqSAHDiphthine synthase/0.441
2q2zMKKKinesin-like protein KIF11/0.441
2qe5617Polyprotein/0.441
2tysPLTTryptophan synthase beta chain4.2.1.200.441
2w0hNDPTrypanothione reductase/0.441
2xcmADPCytosolic heat shock protein 90/0.441
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.441
3gwdFADCyclohexanone monooxygenase/0.441
3hwxTPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase/0.441
3l3rOAGDihydrofolate reductase1.5.1.30.441
3pchCHBProtocatechuate 3,4-dioxygenase beta chain1.13.11.30.441
3q1kADPD-alanine--D-alanine ligase A6.3.2.40.441
4dpy2P0Mevalonate diphosphate decarboxylase/0.441
4j57FADThioredoxin reductase 21.8.1.90.441
4l6gCNL1,8-cineole 2-endo-monooxygenase1.14.13.1560.441
1a4iNDPC-1-tetrahydrofolate synthase, cytoplasmic1.5.1.50.440
1bcpATPPertussis toxin subunit 4/0.440
1bcpATPPertussis toxin subunit 5/0.440
1fm7DFVChalcone--flavonone isomerase 15.5.1.60.440
1pg3PRXAcetyl-coenzyme A synthetase/0.440
1v7aFRCAdenosine deaminase3.5.4.40.440
1xh7R96cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.440
1z5aADPType 2 DNA topoisomerase 6 subunit B/0.440
2chlDKICasein kinase I isoform gamma-32.7.11.10.440
2ddoATPPyridoxine/pyridoxal/pyridoxamine kinase/0.440
2hk9NAPShikimate dehydrogenase (NADP(+))/0.440
3bgrT27Gag-Pol polyprotein2.7.7.490.440
3e6yCW114-3-3-like protein C/0.440
3f7bAG5Carbonic anhydrase 44.2.1.10.440
3junAJDPhenazine biosynthesis protein A/B/0.440
3nlb5BESerine/threonine-protein kinase Chk12.7.11.10.440
3o73O73Ribosyldihydronicotinamide dehydrogenase [quinone]/0.440
3zkbANPDNA gyrase subunit B/0.440
4baoMVFProthrombin3.4.21.50.440
4dpuAGSMevalonate diphosphate decarboxylase/0.440
4ft7H3KSerine/threonine-protein kinase Chk12.7.11.10.440
4iwo1H4Serine/threonine-protein kinase TBK12.7.11.10.440
4qmySTUSerine/threonine-protein kinase 242.7.11.10.440
5c4iTPPOxalate oxidoreductase subunit alpha/0.440
5c4iTPPOxalate oxidoreductase subunit beta/0.440