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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
3njuANNAcidic phospholipase A2 33.1.1.4

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3njuANNAcidic phospholipase A2 33.1.1.41.000
1kquBR4Phospholipase A2, membrane associated/0.528
1db48INPhospholipase A2, membrane associated/0.520
3h3r14HCollagen type IV alpha-3-binding protein/0.516
2b96ANNPhospholipase A23.1.1.40.508
3ix3OHNTranscriptional activator protein LasR/0.500
1cqp803Integrin alpha-L/0.499
3u9fCLMChloramphenicol acetyltransferase2.3.1.280.498
3up0D7SaceDAF-12/0.497
4qemHC4Phospholipase A2 VRV-PL-VIIIa/0.496
4a8v2ANMajor pollen allergen Bet v 1-J/0.492
1xddAAYIntegrin alpha-L/0.488
3u8hBHPPhospholipase A2, membrane associated/0.488
1aypINBPhospholipase A2, membrane associated/0.487
2oliIOPBasic phospholipase A2 VRV-PL-VIIIa3.1.1.40.487
3lfm3DTAlpha-ketoglutarate-dependent dioxygenase FTO/0.487
3sqwANPATP-dependent RNA helicase MSS116, mitochondrial3.6.4.130.485
3sqxANPATP-dependent RNA helicase MSS116, mitochondrial3.6.4.130.485
4imfSI3N-acetylneuraminate lyase/0.483
5hwqCAAHydroxymethylglutaryl-CoA synthase/0.483
2rbeZMGCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.481
4dsbA8SAbscisic acid receptor PYL3/0.481
2x9dITCTetracycline repressor protein class D/0.480
2xlrFADPutative flavin-containing monooxygenase/0.477
1i5rHYCEstradiol 17-beta-dehydrogenase 11.1.1.620.476
1rd4L08Integrin alpha-L/0.476
4uugPXGBranched-chain amino acid aminotransferase, putative/0.476
4cvmANPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase/0.475
3h3sH15Collagen type IV alpha-3-binding protein/0.474
4qerSTLPhospholipase A2 VRV-PL-VIIIa/0.474
3v0o4GWHisto-blood group ABO system transferase/0.473
1dcyI3NPhospholipase A2, membrane associated/0.472
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.472
3ey4352Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.472
3h3qH13Collagen type IV alpha-3-binding protein/0.471
3i5xANPATP-dependent RNA helicase MSS116, mitochondrial3.6.4.130.470
4e2xSAHMethyltransferase/0.470
1kvoOAPPhospholipase A2, membrane associated/0.469
3uyk0CXProbable NDP-rhamnosyltransferase/0.469
1fdtESTEstradiol 17-beta-dehydrogenase 11.1.1.620.468
1ia1NDPDihydrofolate reductase1.5.1.30.468
2yxuATPPyridoxal kinase2.7.1.350.468
4du82P0Mevalonate diphosphate decarboxylase/0.468
4jxrACOAcetyltransferase/0.468
1db56INPhospholipase A2, membrane associated/0.467
2q7oIMHPurine nucleoside phosphorylase2.4.2.10.467
3h3t16HCollagen type IV alpha-3-binding protein/0.467
3hdyGDUUDP-galactopyranose mutase/0.467
4a802ANMajor pollen allergen Bet v 1-A/0.467
2cjeDUNDUTPase/0.466
3dheANDEstradiol 17-beta-dehydrogenase 11.1.1.620.466
3ekuCY9Actin-5C/0.466
4ambDUDPutative glycosyl transferase/0.466
1rfvADPPyridoxal kinase2.7.1.350.465
2fxuBIDActin, alpha skeletal muscle/0.465
3otwCOAPhosphopantetheine adenylyltransferase/0.465
2fhnBNIAvidin-related protein 4/5/0.464
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.464
3bw4FMNPutative 2-nitropropane dioxygenase/0.464
3fhyATPPyridoxal kinase2.7.1.350.464
3q44D50M1 family aminopeptidase3.4.110.464
1tilATPAnti-sigma F factor/0.463
1v35NAIEnoyl-ACP reductase/0.463
3cavCI23-oxo-5-beta-steroid 4-dehydrogenase/0.463
3oibFDAPutative acyl-CoA dehydrogenase/0.463
2yphQQY2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.462
3b6zCO7Enoyl reductase LovC10.462
3gwdNAPCyclohexanone monooxygenase/0.462
3x2wATPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.462
1u1d181Uridine phosphorylase2.4.2.30.461
1ve3SAMUncharacterized protein/0.461
2gjlFMNNitronate monooxygenase1.13.12.160.461
3tm5SFGUncharacterized protein/0.461
4ejmNAPPutative zinc-binding dehydrogenase/0.461
4oh4ANPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.461
4rrhA3SProbable threonine--tRNA ligase 26.1.1.30.461
1n4pCYS_VAL_ILE_LEU_GERGeranylgeranyl transferase type-1 subunit beta2.5.1.590.460
4b4w9L9Bifunctional protein FolD/0.460
4cdmFO1Deoxyribodipyrimidine photolyase/0.460
4cf1IY7Integrase/0.460
4kc4WS3Histo-blood group ABO system transferase/0.460
1r2jFADFkbI/0.459
2a1hGBNBranched-chain-amino-acid aminotransferase, mitochondrial2.6.1.420.459
2pk3A2RGDP-6-deoxy-D-mannose reductase/0.459
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.459
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.459
4n1gCEIObelin/0.459
4x7uZM3Mycinamicin III 3''-O-methyltransferase2.1.1.2370.459
1bwsNDPGDP-L-fucose synthase/0.458
1h22E10Acetylcholinesterase3.1.1.70.458
1n95HFPProtein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.458
1n95HFPProtein farnesyltransferase subunit beta2.5.1.580.458
1q20PLOSulfotransferase family cytosolic 2B member 12.8.2.20.458
1vbiNADMalate/L-lactate dehydrogenase family protein/0.458
2o65MYFSerine/threonine-protein kinase pim-12.7.11.10.458
2uv0OHNTranscriptional activator protein LasR/0.458
3q43D66M1 family aminopeptidase3.4.110.458
4gdcNDPUDP-galactopyranose mutase/0.458
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.458
1ni1HFPProtein farnesyltransferase subunit beta2.5.1.580.457
1xl8152Peroxisomal carnitine O-octanoyltransferase2.3.1.1370.457
2tpsTPSThiamine-phosphate synthase/0.457
3wv9FEGHmd co-occurring protein HcgE/0.457
3x2fNAIAdenosylhomocysteinase/0.457
5hes032Mitogen-activated protein kinase kinase kinase 202.7.11.250.457
3e32ED2Protein farnesyltransferase subunit beta2.5.1.580.456
3qwbNDPProbable quinone oxidoreductase1.6.5.50.456
4a862ANMajor pollen allergen Bet v 1-A/0.456
2ha6SCKAcetylcholinesterase3.1.1.70.455
3ha5SFGHydroxymycolate synthase MmaA42.1.10.455
3v0p4GWHisto-blood group ABO system transferase/0.455
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.455
4h9tHL4Phosphotriesterase/0.455
4oztP1AEcdysone receptor, putative/0.455
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.454
2webPP4Penicillopepsin-13.4.23.200.454
2xuiTZ5Acetylcholinesterase3.1.1.70.454
3elbC5PEthanolamine-phosphate cytidylyltransferase2.7.7.140.454
3eldSFGMethyltransferase/0.454
3imgBZ2Pantothenate synthetase6.3.2.10.454
3ozd4CTS-methyl-5'-thioadenosine phosphorylase/0.454
4jq3NAPAldo-keto reductase family 1 member C2/0.454
1ay0TPPTransketolase 12.2.1.10.453
1dgmADNAdenosine kinase2.7.1.200.453
1dr2TAPDihydrofolate reductase1.5.1.30.453
1e82M90Endothiapepsin3.4.23.220.453
1h50FMNPentaerythritol tetranitrate reductase/0.453
1ndzFR5Adenosine deaminase3.5.4.40.453
1ni12C5Protein farnesyltransferase subunit beta2.5.1.580.453
2getCOKPantothenate kinase2.7.1.330.453
3kkzSAMUncharacterized protein/0.453
3o26NDPSalutaridine reductase/0.453
3tneRITCandidapepsin-13.4.23.240.453
4b7zQ4QAcetylcholinesterase3.1.1.70.453
4x7zZM3Mycinamicin III 3''-O-methyltransferase2.1.1.2370.453
1al8DHPPeroxisomal (S)-2-hydroxy-acid oxidase1.1.3.150.452
1qtiGNTAcetylcholinesterase3.1.1.70.452
1zgbA1EAcetylcholinesterase3.1.1.70.452
2aj8SC3Dipeptidyl peptidase 4/0.452
3arpDEQChitinase A/0.452
4rr6A3SProbable threonine--tRNA ligase 26.1.1.30.452
4rr7A3SProbable threonine--tRNA ligase 26.1.1.30.452
4rrrA3TThreonine--tRNA ligase6.1.1.30.452
5dp2NAPCurF/0.452
5irnADPNucleotide binding oligomerization domain containing 2/0.452
1bnmAL8Carbonic anhydrase 24.2.1.10.451
1kqwRTLCellular retinol-binding protein type II/0.451
1nahNADUDP-glucose 4-epimerase5.1.3.20.451
1pxxDIFProstaglandin G/H synthase 21.14.99.10.451
1vkgCRIHistone deacetylase 83.5.1.980.451
2q1wNADPutative nucleotide sugar epimerase/ dehydratase/0.451
3fhxPXLPyridoxal kinase2.7.1.350.451
3iocA5DPantothenate synthetase6.3.2.10.451
3keuATPPyridoxal kinase2.7.1.350.451
3ojwFMNNADPH--cytochrome P450 reductase/0.451
3ujlA8SAbscisic acid receptor PYL2/0.451
4a30QMIGlycylpeptide N-tetradecanoyltransferase/0.451
4a87NARMajor pollen allergen Bet v 1-A/0.451
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.451
4wdgA2P2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.451
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.450
1q5mNDPProstaglandin-E(2) 9-reductase1.1.1.1890.450
1r58AO5Methionine aminopeptidase 2/0.450
1x1dSAHC-20 methyltransferase/0.450
2dhfDZFDihydrofolate reductase1.5.1.30.450
2gv8NDPThiol-specific monooxygenase1.14.130.450
2wyaHMGHydroxymethylglutaryl-CoA synthase, mitochondrial2.3.3.100.450
2z1mNDPGDP-mannose 4,6-dehydratase/0.450
3dhcCYKN-acyl homoserine lactonase AiiA3.1.1.810.450
3jpuTY4Transcriptional activator protein LasR/0.450
3o96IQORAC-alpha serine/threonine-protein kinase2.7.11.10.450
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.450
4ng2OHNTranscriptional activator protein LasR/0.450
4twnB96Ephrin type-A receptor 32.7.10.10.450
1jnzFADAdenylylsulfate reductase, subunit A (AprA)/0.449
1kwqSG1Carbonic anhydrase 24.2.1.10.449
2g25TDKPyruvate dehydrogenase E1 component1.2.4.10.449
2hc4VDXVitamin D3 receptor A/0.449
2jkvNAP6-phosphogluconate dehydrogenase, decarboxylating1.1.1.440.449
2qbuSAHPrecorrin-2 methyltransferase/0.449
2uxoTACHTH-type transcriptional regulator TtgR/0.449
2whqHI6Acetylcholinesterase3.1.1.70.449
2xgs44PUncharacterized protein/0.449
3a0tADPSensor histidine kinase/0.449
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.449
4dc0NDPPutative ketoacyl reductase1.3.10.449
4esoNAPPutative oxidoreductase/0.449
4hmsFMNPhenazine biosynthesis protein PhzG1.40.449
4iteTEYVitamin D3 receptor/0.449
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.449
1fm4DXCMajor pollen allergen Bet v 1-L/0.448
1o6qR17Squalene--hopene cyclase4.2.1.1290.448
1oklMNSCarbonic anhydrase 24.2.1.10.448
2pvyACPFibroblast growth factor receptor 2/0.448
2x3jATPAcsD/0.448
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.448
3u8dU8DPhospholipase A2, membrane associated/0.448
4ocpADPN-acetylhexosamine 1-kinase2.7.1.1620.448
4pzrCOAHistone acetyltransferase p300/0.448
5iqiGNPBifunctional AAC/APH2.3.10.448
5p2pDHGPhospholipase A2, major isoenzyme3.1.1.40.448
1lwiNAP3-alpha-hydroxysteroid dehydrogenase1.1.1.500.447
2bxoOPBSerum albumin/0.447
2fj1CTCTetracycline repressor protein class D/0.447
2xlsFADPutative flavin-containing monooxygenase/0.447
2yozOVE2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.447
3e30ED4Protein farnesyltransferase subunit beta2.5.1.580.447
3kmxG00Beta-secretase 13.4.23.460.447
3qfrFMNNADPH--cytochrome P450 reductase/0.447
4b4vL34Bifunctional protein FolD/0.447
4eixNIMPhospholipase A2 VRV-PL-VIIIa/0.447
4jlj1NMDeoxycytidine kinase2.7.1.740.447
4rriA3TProbable threonine--tRNA ligase 26.1.1.30.447
5hwoHMGHydroxymethylglutaryl-CoA synthase/0.447
1kvkATPMevalonate kinase2.7.1.360.446
1ot7IU5Bile acid receptor/0.446
1pl6572Sorbitol dehydrogenase1.1.1.140.446
1q6s214Tyrosine-protein phosphatase non-receptor type 13.1.3.480.446
1u1f183Uridine phosphorylase2.4.2.30.446
2bb3SAHCobalamin biosynthesis precorrin-6Y methylase (CbiE)/0.446
2bf4FMNNADPH--cytochrome P450 reductase/0.446
2vttLZDCyclin-dependent kinase 22.7.11.220.446
3elySAHMethyltransferase/0.446
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.446
3zbrNAP2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.446
4o8aFADBifunctional protein PutA1.2.1.880.446
4r81FMNPredicted NADH dehydrogenase/0.446
4yqfGDPSeptin-9/0.446
1ht5FL2Prostaglandin G/H synthase 11.14.99.10.445
1jedADPSulfate adenylyltransferase/0.445
1kp3ATPArgininosuccinate synthase6.3.4.50.445
1mvtDTMDihydrofolate reductase1.5.1.30.445
1qrpHH0Pepsin A-43.4.23.10.445
2db3ANPATP-dependent RNA helicase vasa, isoform A3.6.4.130.445
2eg5SAH7-methylxanthosine synthase 1/0.445
3ix8TX3Transcriptional activator protein LasR/0.445
3pm9FADPutative oxidoreductase/0.445
3w0yDS4Vitamin D3 receptor/0.445
4g8jTHMUridine phosphorylase/0.445
4geb0LDKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.445
4gj30XPNon-receptor tyrosine-protein kinase TYK22.7.10.20.445
4r57ACOSpermidine N(1)-acetyltransferase/0.445
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.445
5e5h0T1Succinyl-CoA:acetate CoA-transferase/0.445
1n2sNAIdTDP-4-dehydrorhamnose reductase1.1.1.1330.444
1pdhFASp-hydroxybenzoate hydroxylase/0.444
1szfFMNCytochrome b2, mitochondrial1.1.2.30.444
1xe65FPPlasmepsin-23.4.23.390.444
2abbFMNPentaerythritol tetranitrate reductase/0.444
2abjCBCBranched-chain-amino-acid aminotransferase, cytosolic2.6.1.420.444
2g28TDKPyruvate dehydrogenase E1 component1.2.4.10.444
2j5sKTAAlr4455 protein/0.444
3af4GCPPantothenate kinase2.7.1.330.444
3byzH11Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.444
3hwxTPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase/0.444
3k7mFAD6-hydroxy-L-nicotine oxidase/0.444
3pm1ETHTH-type transcriptional regulator QacR/0.444
3t7x4SHEndothiapepsin3.4.23.220.444
4bfvZVVPantothenate kinase2.7.1.330.444
4c0bATPmRNA cleavage and polyadenylation factor CLP1/0.444
4jtqNAPAldo-keto reductase family 1 member C2/0.444
5kwvANPPantothenate synthetase/0.444
3sn6P0GBeta-2 adrenergic receptor/0.444
1bwlFMNNADPH dehydrogenase 11.6.99.10.443
1hfqMOTDihydrofolate reductase1.5.1.30.443
1nzdUPGDNA beta-glucosyltransferase/0.443
1rfuADPPyridoxal kinase2.7.1.350.443
1skgVAL_ALA_PHE_ARG_SERBasic phospholipase A2 VRV-PL-VIIIa3.1.1.40.443
1u1gBBBUridine phosphorylase2.4.2.30.443
2gfxPMN3-oxoacyl-[acyl-carrier-protein] synthase 22.3.1.1790.443
2oyfIACBasic phospholipase A2 VRV-PL-VIIIa3.1.1.40.443
2q1sNAIPutative nucleotide sugar epimerase/ dehydratase/0.443
2rlcCHDCholoylglycine hydrolase3.5.1.240.443
3hl0NADMaleylacetate reductase/0.443
3ohh3HHBeta-secretase 13.4.23.460.443
3sqzCOAPutative hydroxymethylglutaryl-CoA synthase/0.443
4b68NAPL-ornithine N(5)-monooxygenase/0.443
4ure1PSCyclohexanol dehydrogenase/0.443
1b2lNDCAlcohol dehydrogenase1.1.1.10.442
1icvFMNOxygen-insensitive NAD(P)H nitroreductase/0.442
1kvrNADUDP-glucose 4-epimerase5.1.3.20.442
1pqc444Oxysterols receptor LXR-beta/0.442
1qy5NECEndoplasmin/0.442
1qyw5SDEstradiol 17-beta-dehydrogenase 11.1.1.620.442
1qyxASDEstradiol 17-beta-dehydrogenase 11.1.1.620.442
2bjfDXCCholoylglycine hydrolase3.5.1.240.442
2fjaFADAdenylylsulfate reductase, subunit A (AprA)/0.442
2ii6C5PAlpha-2,3/2,6-sialyltransferase/sialidase/0.442
2w6cBM4Acetylcholinesterase3.1.1.70.442
2xuoTZ4Acetylcholinesterase3.1.1.70.442
3ha3SAHHydroxymycolate synthase MmaA42.1.10.442
3iqiASN_GLU_ASN_ILECysteine synthase2.5.1.470.442
3lqfNADGalactitol dehydrogenase/0.442
3sn7540cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.442
4a83DXCMajor pollen allergen Bet v 1-A/0.442
4bcaFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.442
4cf7ADPAdenylate kinase/0.442
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.442
4imgNGFN-acetylneuraminate lyase/0.442
4kotCE3Uncharacterized protein/0.442
4rrmA3TProbable threonine--tRNA ligase 26.1.1.30.442
4x9dU5PUncharacterized protein MJ1435/0.442
1c7oPPGHemolysin/0.441
1e2nRCAThymidine kinase/0.441
1kphSAHCyclopropane mycolic acid synthase 12.1.1.790.441
1n95FTHProtein farnesyltransferase subunit beta2.5.1.580.441
1odcA8BAcetylcholinesterase3.1.1.70.441
2a3bCFFEndochitinase B13.2.1.140.441
2ay3MPPAromatic-amino-acid aminotransferase2.6.1.570.441
2fr0NDP6-deoxyerythronolide-B synthase EryA1, modules 1 and 2/0.441
3akn11DFatty acid-binding protein, intestinal/0.441
3c35KAIGlutamate receptor ionotropic, kainate 1/0.441
3kpbSAMUncharacterized protein MJ0100/0.441
3tfp03LDehydrosqualene synthase/0.441
4bfzZVZPantothenate kinase2.7.1.330.441
4d9fDCSD-cysteine desulfhydrase/0.441
4eb5PLPCysteine desulfurase IscS 2/0.441
4i421HA1,4-dihydroxy-2-naphthoyl-CoA synthase/0.441
4rheFMNFlavin prenyltransferase UbiX/0.441
5fm7ADPRuvB-like helicase/0.441
2ddoATPPyridoxine/pyridoxal/pyridoxamine kinase/0.440
2gyuHI6Acetylcholinesterase3.1.1.70.440
2ociTYCValacyclovir hydrolase3.10.440
2wqpWQPPolysialic acid capsule biosynthesis protein SiaC/0.440
3c0g3AMPeripheral plasma membrane protein CASK2.7.11.10.440
3kq7KQ7Mitogen-activated protein kinase 14/0.440
3pd2A3SThreonine--tRNA ligase6.1.1.30.440
3uozFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.440
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.440
4biiPYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.440
4d03NAPPhenylacetone monooxygenase1.14.13.920.440
4d0lGSPRas-related protein Rab-11A/0.440
4ey6GNTAcetylcholinesterase3.1.1.70.440
4m9aFDAAcyl-CoA dehydrogenase/0.440
4y3zF41Endothiapepsin3.4.23.220.440
4y9lFADAcyl-CoA dehydrogenase family member 11/0.440