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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
2hl1A3SThreonine--tRNA ligase6.1.1.3

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
2hl1A3SThreonine--tRNA ligase6.1.1.31.000
4rrqA3SThreonine--tRNA ligase6.1.1.30.679
3pd2A3SThreonine--tRNA ligase6.1.1.30.613
2hl2SSAThreonine--tRNA ligase6.1.1.30.601
3pd5TSBThreonine--tRNA ligase6.1.1.30.601
3pd3A3TThreonine--tRNA ligase6.1.1.30.594
4rrfA3SThreonine--tRNA ligase6.1.1.30.570
3pd4A3GThreonine--tRNA ligase6.1.1.30.562
2hl0A3SThreonine--tRNA ligase6.1.1.30.560
4rrrA3TThreonine--tRNA ligase6.1.1.30.555
4rrmA3TProbable threonine--tRNA ligase 26.1.1.30.548
4rrhA3SProbable threonine--tRNA ligase 26.1.1.30.546
4rrgA3TThreonine--tRNA ligase6.1.1.30.543
4rraA3TProbable threonine--tRNA ligase 26.1.1.30.534
4rriA3TProbable threonine--tRNA ligase 26.1.1.30.534
4rr7A3SProbable threonine--tRNA ligase 26.1.1.30.516
4rrbA3TProbable threonine--tRNA ligase 26.1.1.30.512
4rr8A3SProbable threonine--tRNA ligase 26.1.1.30.507
4rrdA3TProbable threonine--tRNA ligase 26.1.1.30.503
4rrcA3TProbable threonine--tRNA ligase 26.1.1.30.501
4rrlA3SProbable threonine--tRNA ligase 26.1.1.30.498
3q43D66M1 family aminopeptidase3.4.110.495
3q44D50M1 family aminopeptidase3.4.110.491
4rr9A3SProbable threonine--tRNA ligase 26.1.1.30.487
5cvhADPCasein kinase II subunit alpha2.7.11.10.485
4rr6A3SProbable threonine--tRNA ligase 26.1.1.30.484
2zjwREFCasein kinase II subunit alpha2.7.11.10.483
4rrkA3TProbable threonine--tRNA ligase 26.1.1.30.481
1ia3TQ5Dihydrofolate reductase1.5.1.30.479
4e4qRRHPeroxisome proliferator-activated receptor gamma/0.475
1r2jFADFkbI/0.474
3apfBMWPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.471
5h8tRTLRetinol-binding protein 1/0.470
4qa0SHHHistone deacetylase 83.5.1.980.469
1synF89Thymidylate synthase/0.468
3g5sFADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO/0.468
3pgiF41Endothiapepsin3.4.23.220.466
4rrjA3SProbable threonine--tRNA ligase 26.1.1.30.466
4y3zF41Endothiapepsin3.4.23.220.466
3mnrSD1Heat shock protein HSP 90-alpha/0.465
4bfpSWYTankyrase-22.4.2.300.464
4i9i1DYTankyrase-12.4.2.300.464
4bgg844Activin receptor type-12.7.11.300.463
4gg70J8Hepatocyte growth factor receptor2.7.10.10.463
4lwwLWWNicotinamide phosphoribosyltransferase2.4.2.120.463
4m6p20RNicotinamide phosphoribosyltransferase2.4.2.120.463
3dr1C5DVitamin D3 receptor A/0.462
3h3sH15Collagen type IV alpha-3-binding protein/0.462
3irm1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.462
4m4821BSodium-dependent dopamine transporter/0.462
2vtdLKMUDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.461
3ch6311Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.461
1dr3HBIDihydrofolate reductase1.5.1.30.460
2rg6287Mitogen-activated protein kinase 14/0.460
3u8hBHPPhospholipase A2, membrane associated/0.460
4b7sQLECytochrome P450 monooxygenase PikC/0.460
5dc5B3NHistone deacetylase 83.5.1.980.460
3h3t16HCollagen type IV alpha-3-binding protein/0.459
3w5p4OAVitamin D3 receptor/0.459
1fmlRTLRetinol dehydratase/0.458
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.458
3v49PK0Androgen receptor/0.458
4gu610NFocal adhesion kinase 12.7.10.20.458
1gvv0GMEndothiapepsin3.4.23.220.457
1ia4TQ6Dihydrofolate reductase1.5.1.30.457
1rfvADPPyridoxal kinase2.7.1.350.457
3l9mL9McAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.457
4fhk0U0Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.457
4i8vBHFCytochrome P450 1A11.14.14.10.457
4o71CPBBromodomain-containing protein 4/0.457
5iubCLRAdenosine receptor A2a/0.457
1kqwRTLCellular retinol-binding protein type II/0.456
4lxhC1EAlpha/beta hydrolase fold/0.456
4oacADPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.456
1od10QSEndothiapepsin3.4.23.220.455
1ve3SAMUncharacterized protein/0.455
3mtfA3FActivin receptor type-12.7.11.300.455
3zze6XPHepatocyte growth factor receptor2.7.10.10.455
4ma628EAra h 8 allergen/0.455
4nmbFADBifunctional protein PutA/0.455
1fmjRTLRetinol dehydratase/0.454
1q4xG24Thyroid hormone receptor beta/0.454
2j9gANPBiotin carboxylase6.3.4.140.454
2xkdT3MSerine/threonine-protein kinase Nek22.7.11.10.454
3h3qH13Collagen type IV alpha-3-binding protein/0.454
2bfyH1NAurora kinase B-A2.7.11.10.453
2g1pSAHDNA adenine methylase2.1.1.720.453
2z3uCRRCytochrome P450/0.453
3oom507Activin receptor type-12.7.11.300.453
4li61XOTankyrase-12.4.2.300.453
1d2sDHTSex hormone-binding globulin/0.452
3gwfFADCyclohexanone monooxygenase/0.452
4dfn0K1Tyrosine-protein kinase SYK2.7.10.20.452
4l49CAMCamphor 5-monooxygenase1.14.15.10.452
2v4lABJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.451
2vteIK4UDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.451
4iteTEYVitamin D3 receptor/0.451
4lm5Q17Serine/threonine-protein kinase pim-12.7.11.10.451
1gpeFADGlucose oxidase1.1.3.40.450
1hk1T44Serum albumin/0.450
1uyfPU1Heat shock protein HSP 90-alpha/0.450
2chx090Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.450
3c1tMYCDihydroflavonol 4-reductase1.1.1.2190.450
4dymIYZActivin receptor type-12.7.11.300.450
4pkl1GHUncharacterized protein/0.450
3sn6P0GBeta-2 adrenergic receptor/0.450
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.449
1mczTDPBenzoylformate decarboxylase4.1.1.70.449
1uyePU9Heat shock protein HSP 90-alpha/0.449
2gpuOHTEstrogen-related receptor gamma/0.449
3a4pDFQHepatocyte growth factor receptor2.7.10.10.449
3gggNADPrephenate dehydrogenase/0.449
3l9nL9NcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.449
3v8w0G2Tyrosine-protein kinase ITK/TSK2.7.10.20.449
4bchT7ZCyclin-dependent kinase 92.7.11.220.449
4bj9UHBTankyrase-22.4.2.300.449
1rfuADPPyridoxal kinase2.7.1.350.448
2jjj0QSEndothiapepsin3.4.23.220.448
2k62ITLFatty acid-binding protein, liver/0.448
2w3wVG9Dihydrofolate reductase/0.448
3g493G4Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.448
3oqkS52Renin3.4.23.150.448
4a9iP9IBromodomain-containing protein 2/0.448
4dtk7LISerine/threonine-protein kinase pim-12.7.11.10.448
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.448
5iu86DZAdenosine receptor A2a/0.448
1lp4ANPCasein kinase II subunit alpha2.7.11.10.447
1vyrFMNPentaerythritol tetranitrate reductase/0.447
2wgjVGHHepatocyte growth factor receptor2.7.10.10.447
3d5qT30Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.447
3q5kD1UHeat shock protein 83-1/0.447
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.447
4kfn1QRNicotinamide phosphoribosyltransferase2.4.2.120.447
3emlZMAAdenosine receptor A2a/0.447
1a27ESTEstradiol 17-beta-dehydrogenase 11.1.1.620.446
1yhsSTUSerine/threonine-protein kinase pim-12.7.11.10.446
2izsBRQCasein kinase I isoform gamma-32.7.11.10.446
2uagUMAUDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.446
3r04UNQSerine/threonine-protein kinase pim-12.7.11.10.446
3w1wCHDFerrochelatase, mitochondrial4.99.1.10.446
3w5tLHPVitamin D3 receptor/0.446
4a87NARMajor pollen allergen Bet v 1-A/0.446
1tsdF89Thymidylate synthase/0.445
2c59NADGDP-mannose 3,5-epimerase5.1.3.180.445
2hasC3OVitamin D3 receptor/0.445
2izrBRKCasein kinase I isoform gamma-32.7.11.10.445
2p7zOHTEstrogen-related receptor gamma/0.445
2zbaZBATrichothecene 3-O-acetyltransferase/0.445
3dheANDEstradiol 17-beta-dehydrogenase 11.1.1.620.445
3vf80JETyrosine-protein kinase SYK2.7.10.20.445
4m9aFDAAcyl-CoA dehydrogenase/0.445
4qa2SHHHistone deacetylase 83.5.1.980.445
5jtbZMAAdenosine receptor A2a/0.445
1bygSTUTyrosine-protein kinase CSK/0.444
1u59STUTyrosine-protein kinase ZAP-702.7.10.20.444
2ewpTXFEstrogen-related receptor gamma/0.444
2jb4A14Isopenicillin N synthase1.21.3.10.444
2x1nX1NCyclin-dependent kinase 22.7.11.220.444
3hz5Z64Heat shock protein HSP 90-alpha/0.444
3ix8TX3Transcriptional activator protein LasR/0.444
4ead0NPThymidine phosphorylase2.4.2.40.444
4kfp1R7Nicotinamide phosphoribosyltransferase2.4.2.120.444
4ltsLTSNicotinamide phosphoribosyltransferase2.4.2.120.444
4nb6444Nuclear receptor ROR-gamma/0.444
4qa1B3NHistone deacetylase 83.5.1.980.444
4xwtU5PRibonuclease J/0.444
5eypLOCTubulin beta chain/0.444
1mp0NADAlcohol dehydrogenase class-31.1.1.10.443
1ndeMONEstrogen receptor beta/0.443
1rx8FOLDihydrofolate reductase1.5.1.30.443
1xp6AIUEstrogen receptor/0.443
2cd8PXICytochrome P450 monooxygenase PikC/0.443
2ea2F77Methionine aminopeptidase 2/0.443
2hamC33Vitamin D3 receptor/0.443
3q9wEMOCasein kinase II subunit alpha2.7.11.10.443
3rmf20ZCyclin-dependent kinase 22.7.11.220.443
3tk3CPZCytochrome P450 2B41.14.14.10.443
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.443
4q0a4OAVitamin D3 receptor A/0.443
4uymVOR14-alpha sterol demethylase Cyp51B/0.443
4xymCOAAcyl-CoA synthetase (NDP forming)/0.443
1ay0TPPTransketolase 12.2.1.10.442
1e8zSTUPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
1fdsESTEstradiol 17-beta-dehydrogenase 11.1.1.620.442
1jpaANPEphrin type-B receptor 22.7.10.10.442
1mczRMNBenzoylformate decarboxylase4.1.1.70.442
2bpoFADNADPH--cytochrome P450 reductase/0.442
2cdz23DSerine/threonine-protein kinase PAK 42.7.11.10.442
2om9AJAPeroxisome proliferator-activated receptor gamma/0.442
3iok1P6Tyrosine-protein kinase JAK2/0.442
3l9lL9LcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.442
3t2kFADSulfide-quinone reductase/0.442
3uxhUXHRibosyldihydronicotinamide dehydrogenase [quinone]/0.442
3vt8YI3Vitamin D3 receptor/0.442
3w0yDS4Vitamin D3 receptor/0.442
3zk5Z18Cytochrome P450 monooxygenase PikC/0.442
1ddtAPUDiphtheria toxin/0.441
1e7vLY2Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
1i5rHYCEstradiol 17-beta-dehydrogenase 11.1.1.620.441
1u54ACPActivated CDC42 kinase 1/0.441
1uy7PU4Heat shock protein HSP 90-alpha/0.441
2dwpACP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 32.7.1.1050.441
2fumMIXSerine/threonine-protein kinase PknB2.7.11.10.441
2vn9GVDCalcium/calmodulin-dependent protein kinase type II subunit delta2.7.11.170.441
3h3r14HCollagen type IV alpha-3-binding protein/0.441
3mpjFADGlutaryl-CoA dehydrogenase1.3.99.320.441
3r354CO4-hydroxybenzoyl-CoA thioesterase3.1.2.230.441
3vruYS3Vitamin D3 receptor/0.441
3w0aDS5Vitamin D3 receptor/0.441
3w0hW12Vitamin D3 receptor/0.441
4aojV4ZHigh affinity nerve growth factor receptor2.7.10.10.441
4hnc0UTMandelate racemase/0.441
4k181OBSerine/threonine-protein kinase pim-12.7.11.10.441
4l4aCAMCamphor 5-monooxygenase1.14.15.10.441
4r81FMNPredicted NADH dehydrogenase/0.441
4wa9AXITyrosine-protein kinase ABL12.7.10.20.441
5iua6DXAdenosine receptor A2a/0.441
1bwsNDPGDP-L-fucose synthase/0.440
1e90MYCPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.440
1iwiCAMCamphor 5-monooxygenase1.14.15.10.440
1kziTHGThymidylate synthase/0.440
2hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.440
2imfTOM2-hydroxychromene-2-carboxylate isomerase5.99.1.40.440
2iw84SPCyclin-dependent kinase 22.7.11.220.440
2j2iLY4Serine/threonine-protein kinase pim-12.7.11.10.440
2ojg19AMitogen-activated protein kinase 12.7.11.240.440
2w4qCBWProstaglandin reductase 21.3.1.480.440
2ww4ADP4-diphosphocytidyl-2-C-methyl-D-erythritol kinase2.7.1.1480.440
2xytTC9Soluble acetylcholine receptor/0.440
3dcv55ESerine/threonine-protein kinase pim-12.7.11.10.440
3vewADPnebramycin 5' synthase6.1.2.20.440
4fhh0U3Vitamin D3 receptor A/0.440
4gj30XPNon-receptor tyrosine-protein kinase TYK22.7.10.20.440
4klaCHDFerrochelatase, mitochondrial4.99.1.10.440