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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
2hl0A3SThreonine--tRNA ligase6.1.1.3

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
2hl0A3SThreonine--tRNA ligase6.1.1.31.000
4rrmA3TProbable threonine--tRNA ligase 26.1.1.30.589
4rriA3TProbable threonine--tRNA ligase 26.1.1.30.569
4rr6A3SProbable threonine--tRNA ligase 26.1.1.30.550
4rrhA3SProbable threonine--tRNA ligase 26.1.1.30.550
4rrbA3TProbable threonine--tRNA ligase 26.1.1.30.549
3pd2A3SThreonine--tRNA ligase6.1.1.30.548
4rr8A3SProbable threonine--tRNA ligase 26.1.1.30.548
4rr9A3SProbable threonine--tRNA ligase 26.1.1.30.547
4rrqA3SThreonine--tRNA ligase6.1.1.30.546
4rrlA3SProbable threonine--tRNA ligase 26.1.1.30.545
4rr7A3SProbable threonine--tRNA ligase 26.1.1.30.542
2hl1A3SThreonine--tRNA ligase6.1.1.30.537
3pd3A3TThreonine--tRNA ligase6.1.1.30.532
4rraA3TProbable threonine--tRNA ligase 26.1.1.30.529
4rrkA3TProbable threonine--tRNA ligase 26.1.1.30.524
4rrcA3TProbable threonine--tRNA ligase 26.1.1.30.519
4rrdA3TProbable threonine--tRNA ligase 26.1.1.30.512
4rrrA3TThreonine--tRNA ligase6.1.1.30.506
3gwfFADCyclohexanone monooxygenase/0.497
4rrjA3SProbable threonine--tRNA ligase 26.1.1.30.495
3pd4A3GThreonine--tRNA ligase6.1.1.30.490
4i6gFADCryptochrome-2/0.490
2g1s4IGRenin3.4.23.150.489
3vt9YI4Vitamin D3 receptor/0.485
4g1z0VPVitamin D3 receptor A/0.485
4rrgA3TThreonine--tRNA ligase6.1.1.30.485
1zg32HIIsoflavone 4'-O-methyltransferase/0.483
4iteTEYVitamin D3 receptor/0.479
2i4qUA4Renin3.4.23.150.477
4ead0NPThymidine phosphorylase2.4.2.40.477
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.477
3vtdTKDVitamin D3 receptor/0.475
4xsvC5PEthanolamine-phosphate cytidylyltransferase2.7.7.140.475
3d5qT30Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.474
1m13HYFNuclear receptor subfamily 1 group I member 2/0.473
2o4rVD5Vitamin D3 receptor/0.473
2uxoTACHTH-type transcriptional regulator TtgR/0.473
3a783EVVitamin D3 receptor/0.473
2hl2SSAThreonine--tRNA ligase6.1.1.30.472
3vt5YI2Vitamin D3 receptor/0.472
3jpuTY4Transcriptional activator protein LasR/0.471
3vrvYSDVitamin D3 receptor/0.470
2g1r3IGRenin3.4.23.150.469
5kghACOPredicted acetyltransferase/0.469
1fmjRTLRetinol dehydratase/0.467
2po7CHDFerrochelatase, mitochondrial4.99.1.10.467
3akm11DFatty acid-binding protein, intestinal/0.467
3l9lL9LcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.467
3w0hW12Vitamin D3 receptor/0.467
4jbsP52Endoplasmic reticulum aminopeptidase 23.4.110.467
1gg5FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.466
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.466
4g090VDHistidinol dehydrogenase/0.466
4hle17VPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.466
4r81FMNPredicted NADH dehydrogenase/0.466
1qbgFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.465
2q9fC3SCholesterol 24-hydroxylase/0.465
2zl9VDAVitamin D3 receptor/0.465
4b13X25Glycylpeptide N-tetradecanoyltransferase/0.465
1xddAAYIntegrin alpha-L/0.464
1s19MC9Vitamin D3 receptor/0.463
4ejh0QACytochrome P450 2A131.14.14.10.463
4fhi0S4Vitamin D3 receptor A/0.463
4o701QKBromodomain-containing protein 4/0.463
4qzuRTLRetinol-binding protein 2/0.463
4y8wSTRSteroid 21-hydroxylase/0.463
1fduESTEstradiol 17-beta-dehydrogenase 11.1.1.620.462
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.462
1txiTX5Vitamin D3 receptor/0.462
2zu9GDPMannosyl-3-phosphoglycerate synthase2.4.1.2170.462
3g1rNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.462
3vt8YI3Vitamin D3 receptor/0.462
1crbRTLRetinol-binding protein 1/0.461
2g1n1IGRenin3.4.23.150.461
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.461
1k7fIAVTryptophan synthase alpha chain/0.460
3kpzZNEVitamin D3 receptor/0.460
3w0jT08Vitamin D3 receptor/0.460
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.459
2iko7IGRenin3.4.23.150.459
2mm3CHOGastrotropin/0.459
2qd3CHDFerrochelatase, mitochondrial4.99.1.10.459
4ia7BIVVitamin D3 receptor A/0.459
1kqwRTLCellular retinol-binding protein type II/0.458
3oqfS51Renin3.4.23.150.458
3uzwNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.458
3w0gW07Vitamin D3 receptor/0.458
1ie9VDXVitamin D3 receptor/0.457
3h3sH15Collagen type IV alpha-3-binding protein/0.457
3pd5TSBThreonine--tRNA ligase6.1.1.30.457
4lxhC1EAlpha/beta hydrolase fold/0.457
1h69FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.456
1y4lSVRBasic phospholipase A2 homolog 2/0.456
2qimZEAClass 10 plant pathogenesis-related protein/0.456
3caqNDP3-oxo-5-beta-steroid 4-dehydrogenase/0.456
3dopNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.456
3uicNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.456
4bznUGXSerine/threonine-protein kinase pim-12.7.11.10.456
5a0112VO-glycosyltransferase/0.456
3sn6P0GBeta-2 adrenergic receptor/0.456
1osvCHCBile acid receptor/0.455
1y0s331Peroxisome proliferator-activated receptor delta/0.455
2wd9IBPAcyl-coenzyme A synthetase ACSM2A, mitochondrial6.2.1.20.455
4ia3BIVVitamin D3 receptor A/0.455
4ryvZEAProtein LlR18A/0.455
5eaiFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.455
1rkhVD2Vitamin D3 receptor/0.454
2hcdBIVVitamin D3 receptor A/0.454
2q4wFADCytokinin dehydrogenase 71.5.99.120.454
3junAKDPhenazine biosynthesis protein A/B/0.454
4fki09KCyclin-dependent kinase 22.7.11.220.454
1g6kNADGlucose 1-dehydrogenase1.1.1.470.453
2lbaCHOFatty acid binding protein 6/0.453
3oqkS52Renin3.4.23.150.453
3r7vZ02Cyclin-dependent kinase 22.7.11.220.453
3w0yDS4Vitamin D3 receptor/0.453
4enhFVXCholesterol 24-hydroxylase/0.453
4fhh0U3Vitamin D3 receptor A/0.453
4mlp2CXCryptochrome-2/0.453
4q71FADBifunctional protein PutA/0.453
5kgpACOPredicted acetyltransferase/0.453
1fmlRTLRetinol dehydratase/0.452
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.452
2lfoGCHFatty acid-binding protein, liver/0.452
2pnjCHDFerrochelatase, mitochondrial4.99.1.10.452
3c3xNAPEugenol synthase 11.1.1.3180.452
3vrwYS5Vitamin D3 receptor/0.452
3w5tLHPVitamin D3 receptor/0.452
4a81DXCMajor pollen allergen Bet v 1-A/0.452
4hbm0Y7E3 ubiquitin-protein ligase Mdm26.3.20.452
4jlj1NMDeoxycytidine kinase2.7.1.740.452
5fliQUEQuercetinase QueD/0.452
1cjtFOKAdenylate cyclase type 2/0.451
1cjtFOKAdenylate cyclase type 5/0.451
1s5kCOAAminoglycoside N(6')-acetyltransferase type 1/0.451
1u1jC2F5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase 12.1.1.140.451
2hc4VDXVitamin D3 receptor A/0.451
2ikuLIYRenin3.4.23.150.451
2zlaVDBVitamin D3 receptor/0.451
3ielU5PRibonuclease TTHA02523.10.451
3p3zP3ZPutative cytochrome P450/0.451
4g210VPVitamin D3 receptor A/0.451
4ho8THMGlucose-1-phosphate thymidylyltransferase/0.451
1s0zEB1Vitamin D3 receptor/0.450
2zlcVDXVitamin D3 receptor/0.450
3akn11DFatty acid-binding protein, intestinal/0.450
3c49KU8Poly [ADP-ribose] polymerase 32.4.2.300.450
3deyDHTEstradiol 17-beta-dehydrogenase 11.1.1.620.450
3klmDHTEstradiol 17-beta-dehydrogenase 11.1.1.620.450
3mdmFJZCholesterol 24-hydroxylase/0.450
4bfvZVVPantothenate kinase2.7.1.330.450
4l0qNADAlcohol dehydrogenase class-3/0.450
4nbiD3YD-tyrosyl-tRNA(Tyr) deacylase/0.450
1ppjANYCytochrome b/0.449
1zdwFLVPrenyltransferase/0.449
2znq401Peroxisome proliferator-activated receptor delta/0.449
3f1kNAPUncharacterized oxidoreductase YciK10.449
3g70A5TRenin3.4.23.150.449
3hy310F5-formyltetrahydrofolate cyclo-ligase6.3.3.20.449
3vsoEK1Peroxisome proliferator-activated receptor gamma/0.449
3vtbTKAVitamin D3 receptor/0.449
4dc0NDPPutative ketoacyl reductase1.3.10.449
4f7iNAD3-isopropylmalate dehydrogenase1.1.1.850.449
5cvhADPCasein kinase II subunit alpha2.7.11.10.449
1rdtL79Retinoic acid receptor RXR-alpha/0.448
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.448
3h3r14HCollagen type IV alpha-3-binding protein/0.448
3oeeANPATP synthase subunit alpha, mitochondrial/0.448
3oeeANPATP synthase subunit beta, mitochondrial3.6.3.140.448
3t3q9PLCytochrome P450 2A61.14.130.448
3vyfVYFRenin3.4.23.150.448
3w0aDS5Vitamin D3 receptor/0.448
4g3jVNTLanosterol 14-alpha-demethylase/0.448
4uymVOR14-alpha sterol demethylase Cyp51B/0.448
1ay0TPPTransketolase 12.2.1.10.447
1w4zNAPPutative ketoacyl reductase1.3.10.447
1zeoC01Peroxisome proliferator-activated receptor gamma/0.447
2fpcSCGStrictosidine synthase4.3.3.20.447
3djlFADPutative acyl-CoA dehydrogenase AidB1.3.990.447
3ha5SFGHydroxymycolate synthase MmaA42.1.10.447
3iocA5DPantothenate synthetase6.3.2.10.447
3th8TH9Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.447
4xiwAZMCarbonic anhydrase, alpha type/0.447
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.446
1nhz486Glucocorticoid receptor/0.446
2g20L1ARenin3.4.23.150.446
2hamC33Vitamin D3 receptor/0.446
2v9jATP5'-AMP-activated protein kinase subunit gamma-1/0.446
3rbqGLY_ALA_GLY_DAOProtein unc-119 homolog A/0.446
3vt7VDXVitamin D3 receptor/0.446
4bfxZVXPantothenate kinase2.7.1.330.446
4j7xSASSepiapterin reductase1.1.1.1530.446
1bwsNDPGDP-L-fucose synthase/0.445
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.445
1uh5TCLEnoyl-ACP reductase/0.445
2cdaNAPGlucose 1-dehydrogenase/0.445
2zulSAMProbable ribosomal RNA small subunit methyltransferase/0.445
3rbqGLY_ALA_GLY_ALA_DAOProtein unc-119 homolog A/0.445
3vswR31Renin3.4.23.150.445
4i8vBHFCytochrome P450 1A11.14.14.10.445
4rlh0WEEnoyl-[acyl-carrier-protein] reductase [NADH]/0.445
5d7pOCZNAD-dependent protein deacetylase sirtuin-23.5.10.445
1dxqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.444
1fxsNAPGDP-L-fucose synthase/0.444
1p8dCO1Oxysterols receptor LXR-beta/0.444
1vzdCB3Thymidylate synthase/0.444
2vqoTFGHistone deacetylase 43.5.1.980.444
3l9mL9McAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.444
3lqfNADGalactitol dehydrogenase/0.444
3p62FMNPentaerythritol tetranitrate reductase/0.444
3roy22ZCyclin-dependent kinase 22.7.11.220.444
3s1dZIRCytokinin dehydrogenase 11.5.99.120.444
3tk3CPZCytochrome P450 2B41.14.14.10.444
3w78CBDFMN-dependent NADH-azoreductase/0.444
4dpuAGSMevalonate diphosphate decarboxylase/0.444
4jnm1LJNicotinamide phosphoribosyltransferase2.4.2.120.444
4l8u9AZSerum albumin/0.444
1culFOKAdenylate cyclase type 2/0.443
1culFOKAdenylate cyclase type 5/0.443
1fm4DXCMajor pollen allergen Bet v 1-L/0.443
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.443
2g226IGRenin3.4.23.150.443
2pr2DG1Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.443
2z0ySAMRibosomal RNA small subunit methyltransferase E/0.443
3mdvCL6Cholesterol 24-hydroxylase/0.443
3rm618ZCyclin-dependent kinase 22.7.11.220.443
3vtcTK3Vitamin D3 receptor/0.443
3w5p4OAVitamin D3 receptor/0.443
4eufNADTrans-2-enoyl-CoA reductase [NADH]/0.443
5a9sNAPPutative dehydrogenase/0.443
5bt42LOBromodomain-containing protein 4/0.443
5h8tRTLRetinol-binding protein 1/0.443
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.442
1qorNDPQuinone oxidoreductase 1/0.442
3bv7NAP3-oxo-5-beta-steroid 4-dehydrogenase/0.442
3csdEMOPutative ketoacyl reductase1.3.10.442
3junAJDPhenazine biosynthesis protein A/B/0.442
3pm1ETHTH-type transcriptional regulator QacR/0.442
3tdaPN0Cytochrome P450 2D6/0.442
3w0c6DSVitamin D3 receptor/0.442
4bchT7ZCyclin-dependent kinase 92.7.11.220.442
4do30LAFatty-acid amide hydrolase 13.5.1.990.442
4e4qRRHPeroxisome proliferator-activated receptor gamma/0.442
4ez30S0Cyclin-dependent kinase 22.7.11.220.442
4gv25MEPoly [ADP-ribose] polymerase 32.4.2.300.442
4iae1DXAlr2278 protein/0.442
4j8tDOGUncharacterized PhzA/B-like protein PA3332/0.442
4jx1CAHCamphor 5-monooxygenase1.14.15.10.442
4oe4NADDelta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial1.2.1.880.442
1al8DHPPeroxisomal (S)-2-hydroxy-acid oxidase1.1.3.150.441
1cjkFOKAdenylate cyclase type 2/0.441
1cjkFOKAdenylate cyclase type 5/0.441
1gzuNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.441
1tl7FOKAdenylate cyclase type 2/0.441
1tl7FOKAdenylate cyclase type 5/0.441
1ygjRMCPyridoxal kinase2.7.1.350.441
2v58LZJBiotin carboxylase6.3.4.140.441
2w0bCMWLanosterol 14-alpha demethylase1.14.13.700.441
3kpkFADSulfide-quinone reductase/0.441
3mg3ECHOrange carotenoid-binding protein/0.441
3r7eX88Cyclin-dependent kinase 22.7.11.220.441
3vt45YIVitamin D3 receptor/0.441
4dz5NAPAldo-keto reductase family 1 member C3/0.441
4o281QSNicotinamide phosphoribosyltransferase2.4.2.120.441
4r20AERCytochrome P450 family 17 polypeptide 2/0.441
4wdb2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.441
1ddtAPUDiphtheria toxin/0.440
1i5rHYCEstradiol 17-beta-dehydrogenase 11.1.1.620.440
1lp4ANPCasein kinase II subunit alpha2.7.11.10.440
1n2sNAIdTDP-4-dehydrorhamnose reductase1.1.1.1330.440
1o6qR17Squalene--hopene cyclase4.2.1.1290.440
1vyrFMNPentaerythritol tetranitrate reductase/0.440
2uv0OHNTranscriptional activator protein LasR/0.440
3fzpAGSProtein-tyrosine kinase 2-beta2.7.10.20.440
3k4nFADPyranose 2-oxidase/0.440
3p8iFMNPentaerythritol tetranitrate reductase/0.440
3sgv2BJDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.440
3vf60H6Glucokinase2.7.1.20.440
3vgnFNNSteroid Delta-isomerase5.3.3.10.440
4a2aATPCell division protein FtsA/0.440
4e5yNDPGDP-L-fucose synthase1.1.1.2710.440
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
4g2h0VQVitamin D3 receptor A/0.440
4i7fNVEGag-Pol polyprotein2.7.7.490.440
4mfb29TGag-Pol polyprotein2.7.7.490.440
4ng2OHNTranscriptional activator protein LasR/0.440
4v2gITCTetracycline repressor protein class D/0.440
4yaw2AMNADPH--cytochrome P450 reductase/0.440