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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
1p0ePRFQueuine tRNA-ribosyltransferase2.4.2.29

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1p0ePRFQueuine tRNA-ribosyltransferase2.4.2.291.000
1q4wDQUQueuine tRNA-ribosyltransferase2.4.2.290.641
2qzrS79Queuine tRNA-ribosyltransferase2.4.2.290.639
3ge7AFQQueuine tRNA-ribosyltransferase2.4.2.290.625
1y5xE89Queuine tRNA-ribosyltransferase2.4.2.290.621
3gc4AAQQueuine tRNA-ribosyltransferase2.4.2.290.620
4fps0UXQueuine tRNA-ribosyltransferase2.4.2.290.613
4giy0WYQueuine tRNA-ribosyltransferase2.4.2.290.610
1ozqPRFQueuine tRNA-ribosyltransferase2.4.2.290.594
1f3eDPZQueuine tRNA-ribosyltransferase2.4.2.290.593
2z1xPRFQueuine tRNA-ribosyltransferase2.4.2.290.591
3sm0AEKQueuine tRNA-ribosyltransferase2.4.2.290.590
4gh10WXQueuine tRNA-ribosyltransferase2.4.2.290.589
4gg90WWQueuine tRNA-ribosyltransferase2.4.2.290.584
4gkt0O1Queuine tRNA-ribosyltransferase2.4.2.290.584
1k4gAIQQueuine tRNA-ribosyltransferase2.4.2.290.580
2bbf344Queuine tRNA-ribosyltransferase2.4.2.290.576
4gh30EVQueuine tRNA-ribosyltransferase2.4.2.290.571
4fsa0V3Queuine tRNA-ribosyltransferase2.4.2.290.568
1r5yDQUQueuine tRNA-ribosyltransferase2.4.2.290.562
1q63AIQQueuine tRNA-ribosyltransferase2.4.2.290.559
1efzPRFQueuine tRNA-ribosyltransferase2.4.2.290.558
3gc52MQQueuine tRNA-ribosyltransferase2.4.2.290.552
1k4hAPQQueuine tRNA-ribosyltransferase2.4.2.290.550
2potGUNQueuine tRNA-ribosyltransferase2.4.2.290.538
2z1wBDIQueuine tRNA-ribosyltransferase2.4.2.290.538
1pxgPRFQueuine tRNA-ribosyltransferase2.4.2.290.533
4gcxPRFQueuine tRNA-ribosyltransferase2.4.2.290.528
3bllBPQQueuine tRNA-ribosyltransferase2.4.2.290.522
4q8pCKRQueuine tRNA-ribosyltransferase2.4.2.290.522
4hshQEIQueuine tRNA-ribosyltransferase2.4.2.290.517
1jdvADNPurine nucleoside phosphorylase/0.512
4hvxQEIQueuine tRNA-ribosyltransferase2.4.2.290.512
1q65BHBQueuine tRNA-ribosyltransferase2.4.2.290.499
4hqvQEIQueuine tRNA-ribosyltransferase2.4.2.290.499
4s1iPLPPyridoxal kinase, putative/0.498
1cjwCOTSerotonin N-acetyltransferase/0.491
4cvmANPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase/0.491
4h7zGUNQueuine tRNA-ribosyltransferase2.4.2.290.491
3bldPRFQueuine tRNA-ribosyltransferase2.4.2.290.489
1kuyCOTSerotonin N-acetyltransferase/0.487
3gncQQQGlutaryl-CoA dehydrogenase/0.484
2gmuPDGPutative pyridoxamine 5-phosphate-dependent dehydrase/0.480
1dljUGAUDP-glucose 6-dehydrogenase/0.479
3b9xNOSPyrimidine-specific ribonucleoside hydrolase RihB3.2.2.80.479
3zj6VM2Raucaffricine-O-beta-D-glucosidase3.2.1.1250.478
4f3gKAIGlutamate receptor 3/0.478
1je1GMPPurine nucleoside phosphorylase/0.476
1n2vBDIQueuine tRNA-ribosyltransferase2.4.2.290.476
5cwa0GAAnthranilate synthase component 14.1.3.270.473
4buxF35Tankyrase-22.4.2.300.472
1dliUDXUDP-glucose 6-dehydrogenase/0.471
1jdzFMBPurine nucleoside phosphorylase/0.471
2hp2KE4Glutamate-1-semialdehyde 2,1-aminomutase5.4.3.80.470
2jf6S55Strictosidine-O-beta-D-glucosidase3.2.1.1050.470
2qtaTDPPyruvate dehydrogenase E1 component1.2.4.10.470
4da8BG2Purine nucleoside phosphorylase DeoD-type2.4.2.10.469
4f0rMTA5-methylthioadenosine/S-adenosylhomocysteine deaminase/0.469
1fw0KAIGlutamate receptor 2/0.468
2j7cIDEBeta-glucosidase A3.2.1.210.468
2z95NDPGDP-mannose 4,6-dehydratase/0.468
1q0zAKAAclacinomycin methylesterase RdmC3.1.1.950.467
2zu8GDDMannosyl-3-phosphoglycerate synthase2.4.1.2170.467
2zu9GDPMannosyl-3-phosphoglycerate synthase2.4.1.2170.467
3pdqKC6Lysine-specific demethylase 4A1.14.110.466
3w3zGTPGTP-binding nuclear protein Ran/0.466
4jva1ORcAMP-dependent protein kinase type II-beta regulatory subunit/0.466
1jdtMTAPurine nucleoside phosphorylase/0.465
2jj8AZZDeoxynucleoside kinase/0.464
1kuxCA3Serotonin N-acetyltransferase/0.463
2j0vGDPRac-like GTP-binding protein ARAC7/0.463
3eon341Glutaryl-CoA dehydrogenase/0.463
4frkDWDBeta-secretase 13.4.23.460.463
4l0t1V0Tankyrase-22.4.2.300.463
3ex8AIFRiboflavin biosynthesis protein RibD1.1.1.1930.462
2g28TDKPyruvate dehydrogenase E1 component1.2.4.10.461
1ivsVAAValine--tRNA ligase6.1.1.90.460
1pr5TBNPurine nucleoside phosphorylase DeoD-type/0.460
3kr8XAVTankyrase-22.4.2.300.460
3wqtANPCell division protein FtsA/0.460
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.460
3u5ySCGRaucaffricine-O-beta-D-glucosidase3.2.1.1250.459
4b78KGGBeta-secretase 13.4.23.460.459
4tx9AMZPhosphoribosyl isomerase A/0.459
1a9cGTPGTP cyclohydrolase 13.5.4.160.458
1it7GUNtRNA-guanine(15) transglycosylase2.4.2.480.458
1nbuPH2Dihydroneopterin aldolase/0.458
2c3cNAP2-oxopropyl-CoM reductase, carboxylating1.8.1.50.458
2zi63D1Deoxycytidine kinase2.7.1.740.458
4bgbADPPredicted molecular chaperone distantly related to HSP70-fold metalloproteases/0.458
1q0rAKTAclacinomycin methylesterase RdmC3.1.1.950.457
2il2LIXRenin3.4.23.150.457
2onfCOAUncharacterized protein/0.457
3sl2ATPSensor histidine kinase WalK/0.457
5ah5LSSLeucine--tRNA ligase/0.457
2az3CDPNucleoside diphosphate kinase/0.456
2ivnANPtRNA N6-adenosine threonylcarbamoyltransferase/0.456
2oazI96Methionine aminopeptidase 2/0.456
3e6oA55Nitric oxide synthase, inducible1.14.13.390.456
3fuhBESLeukotriene A-4 hydrolase3.3.2.60.456
3ziuLSSLeucyl-tRNA synthetase/0.456
1c3x8IGPurine nucleoside phosphorylase2.4.2.10.455
1yqj6NPMitogen-activated protein kinase 14/0.455
5dn1AMZPhosphoribosyl isomerase A5.3.1.160.455
1lb9DNQGlutamate receptor 2/0.454
1pr6XYAPurine nucleoside phosphorylase DeoD-type/0.454
2gmsP0PPutative pyridoxamine 5-phosphate-dependent dehydrase/0.454
3axsSFGtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase/0.454
3q44D50M1 family aminopeptidase3.4.110.454
4dan2FAPurine nucleoside phosphorylase DeoD-type2.4.2.10.454
4h3f10OBeta-secretase 13.4.23.460.454
2q153MRBeta-secretase 13.4.23.460.453
3gn73GNPoly [ADP-ribose] polymerase 12.4.2.300.453
4n3r2GUTankyrase-12.4.2.300.453
4req5ADMethylmalonyl-CoA mutase large subunit5.4.99.20.453
1r2jFADFkbI/0.452
2g1a5HGClass B acid phosphatase3.1.3.20.452
2xiq5ADMethylmalonyl-CoA mutase, mitochondrial/0.452
3gjwGJWPoly [ADP-ribose] polymerase 12.4.2.300.452
3ppkFNISerine/threonine-protein kinase B-raf2.7.11.10.452
4ead0NPThymidine phosphorylase2.4.2.40.452
1gky5GPGuanylate kinase2.7.4.80.451
1r6uTYMTryptophan--tRNA ligase, cytoplasmic6.1.1.20.451
1xduSFGAclacinomycin 10-hydroxylase RdmB4.1.10.451
1xvaSAMGlycine N-methyltransferase2.1.1.200.451
2vrjNCWBeta-glucosidase A3.2.1.210.451
3e6eDCSAlanine racemase/0.451
3lq4TDPPyruvate dehydrogenase E1 component1.2.4.10.451
3rvhHQ2Lysine-specific demethylase 4A1.14.110.451
4da7AC2Purine nucleoside phosphorylase DeoD-type2.4.2.10.451
1cdeDZFPhosphoribosylglycinamide formyltransferase/0.450
3h3qH13Collagen type IV alpha-3-binding protein/0.450
3qfrNAPNADPH--cytochrome P450 reductase/0.450
4gki0JNAminoglycoside 3'-phosphotransferase AphA1-IAB/0.450
4iaq2GM5-hydroxytryptamine receptor 1B/0.450
4l6s1WQPoly [ADP-ribose] polymerase 12.4.2.300.450
4u7wNDPMxaA/0.450
1fwyUD1Bifunctional protein GlmU/0.449
1njjORXOrnithine decarboxylase/0.449
1o9bNAIQuinate/shikimate dehydrogenase/0.449
1x1bSAHC-20 methyltransferase/0.449
1zy5ANPeIF-2-alpha kinase GCN2/0.449
2gouFMNNADH:flavin oxidoreductase Sye1/0.449
3to3ATPPetrobactin biosynthesis protein AsbB/0.449
4b0532DBeta-secretase 13.4.23.460.449
4h3j10WBeta-secretase 13.4.23.460.449
4hfp15UProthrombin3.4.21.50.449
5dozNDPJamJ/0.449
1njdUMPThymidylate synthase/0.448
1nqxRLP6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.448
2cg5COAL-aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase2.7.80.448
2wjoQUDBeta-secretase 13.4.23.460.448
2zxgS23Aminopeptidase N3.4.11.20.448
3fp0FP015-O-acetyltransferase/0.448
3ha5SFGHydroxymycolate synthase MmaA42.1.10.448
3lpgZ78Beta-glucuronidase3.2.1.310.448
4e7r0NWProthrombin3.4.21.50.448
4kvzSAHPtnL protein/0.448
5dbjFADFADH2-dependent halogenase PltA/0.448
1dfoPLGSerine hydroxymethyltransferase2.1.2.10.447
1ve3SAMUncharacterized protein/0.447
2cleF6FTryptophan synthase alpha chain/0.447
4a30QMIGlycylpeptide N-tetradecanoyltransferase/0.447
4buwF33Tankyrase-22.4.2.300.447
1ahgTYR_PLPAspartate aminotransferase2.6.1.10.446
1dnpMHFDeoxyribodipyrimidine photo-lyase4.1.99.30.446
1efyBZCPoly [ADP-ribose] polymerase 12.4.2.300.446
2j7dGI1Beta-glucosidase A3.2.1.210.446
2vq7NAPPutative flavin-containing monooxygenase/0.446
2xlrNAPPutative flavin-containing monooxygenase/0.446
3cow52HPantothenate synthetase6.3.2.10.446
3e7iB2Nitric oxide synthase, inducible1.14.13.390.446
3hr4FMNNitric oxide synthase, inducible1.14.13.390.446
3oafOAGDihydrofolate reductase1.5.1.30.446
3vv8B02Beta-secretase 13.4.23.460.446
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.446
4ugaQ05Nitric oxide synthase oxygenase1.14.13.1650.446
5f8uP32Beta-1 adrenergic receptor/0.446
1mrqSTRAldo-keto reductase family 1 member C1/0.445
2bf4FADNADPH--cytochrome P450 reductase/0.445
3dz2A8MS-adenosylmethionine decarboxylase proenzyme4.1.1.500.445
3lfm3DTAlpha-ketoglutarate-dependent dioxygenase FTO/0.445
4qmpDKISerine/threonine-protein kinase 242.7.11.10.445
4r5wXAVPoly [ADP-ribose] polymerase 12.4.2.300.445
1q6nP90Tyrosine-protein phosphatase non-receptor type 13.1.3.480.444
1qzzSAMAclacinomycin 10-hydroxylase RdmB4.1.10.444
2b82ADNClass B acid phosphatase3.1.3.20.444
2y01Y00Beta-1 adrenergic receptor/0.444
2y035FWBeta-1 adrenergic receptor/0.444
3t2vKKJPeptidoglycan recognition protein 1/0.444
4az0S61Lysosomal protective protein3.4.16.50.444
4bcaFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.444
4djy0KRBeta-secretase 13.4.23.460.444
4i8vBHFCytochrome P450 1A11.14.14.10.444
1gaxVAAValine--tRNA ligase6.1.1.90.443
1jwtBLIProthrombin3.4.21.50.443
1mlzPLPAdenosylmethionine-8-amino-7-oxononanoate aminotransferase2.6.1.620.443
2ivpATPtRNA N6-adenosine threonylcarbamoyltransferase/0.443
2v57PRLTetR family transcriptional regulator/0.443
2xvu9DNSerum albumin/0.443
3nytULPUDP-2-acetamido-2-deoxy-3-oxo-D-glucuronate aminotransferase2.6.1.980.443
3of3DIHPurine nucleoside phosphorylase DeoD-type 1/0.443
4ajm3A6cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.443
4k39SAMAnaerobic sulfatase-maturating enzyme1.8.980.443
4yal2AMNADPH--cytochrome P450 reductase/0.443
1ez0NAPNADP-dependent fatty aldehyde dehydrogenase1.2.1.40.442
1lcbDHFThymidylate synthase/0.442
1trkTPPTransketolase 12.2.1.10.442
1yhjR6CPyridoxal kinase2.7.1.350.442
2isc223Purine nucleoside phosphorylase, putative/0.442
2xkfBX1Serine/threonine-protein kinase Nek22.7.11.10.442
3ckqUPGGlucosyl-3-phosphoglycerate synthase2.4.1.2660.442
3qftNAPNADPH--cytochrome P450 reductase/0.442
4gi5FADPutative NAD(P)H dehydrogenase (Quinone)/0.442
4jeyPLPAcetylornithine/succinyldiaminopimelate aminotransferase2.6.1.110.442
4lt63ATPoly(A) polymerase gamma2.7.7.190.442
4tvj09LPoly [ADP-ribose] polymerase 22.4.2.300.442
1ex75GPGuanylate kinase2.7.4.80.441
1paxDHQPoly [ADP-ribose] polymerase 12.4.2.300.441
2q0gUPUPoly(A) polymerase, putative/0.441
2z4y252Geranylgeranyl pyrophosphate synthase/0.441
3qe2NAPNADPH--cytochrome P450 reductase/0.441
3rl45GPMetallophosphoesterase MPPED23.10.441
4c36ZO9cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.441
4ldlXQCBeta-2 adrenergic receptor/0.441
1el4CTZObelin/0.440
1xp6AIUEstrogen receptor/0.440
1xuzMMNCapsule biosynthesis protein/0.440
1zgv501Prothrombin3.4.21.50.440
2mokFMNFlavodoxin 1/0.440
2rc5FADFerredoxin--NADP reductase/0.440
2rc6FADFerredoxin--NADP reductase/0.440
2wwjY28Lysine-specific demethylase 4A/0.440
3c34KAIGlutamate receptor ionotropic, kainate 1/0.440
3w0tHPULactoylglutathione lyase4.4.1.50.440
4eb7PLPCysteine desulfurase IscS 2/0.440