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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
4nbuCAA3-oxoacyl-(Acyl-carrier-protein) reductase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4nbuCAA3-oxoacyl-(Acyl-carrier-protein) reductase/1.000
4a30QMIGlycylpeptide N-tetradecanoyltransferase/0.518
3ioeA7DPantothenate synthetase6.3.2.10.498
3b4yF42F420-dependent glucose-6-phosphate dehydrogenase/0.495
4tx9AMZPhosphoribosyl isomerase A/0.490
1a9zUPGUDP-glucose 4-epimerase5.1.3.20.487
4bfsZVSPantothenate kinase2.7.1.330.483
4d03FADPhenylacetone monooxygenase1.14.13.920.483
1jumBERHTH-type transcriptional regulator QacR/0.482
2acwUPGGlycosyltransferase/0.482
4ypuSAMHistone-lysine N-methyltransferase ASH1L2.1.1.430.482
2bt4CA23-dehydroquinate dehydratase4.2.1.100.479
2cv2GSUGlutamate--tRNA ligase6.1.1.170.478
4b1uLABActin, alpha skeletal muscle/0.478
4yqfGDPSeptin-9/0.477
4a2zVIQGlycylpeptide N-tetradecanoyltransferase/0.476
4ei7GDPPlasmid replication protein RepX/0.476
1eioGCHGastrotropin/0.475
3q2jCKIAminoglycoside 3'-phosphotransferase2.7.1.950.475
3e2sFADBifunctional protein PutA1.5.5.20.474
1a9yUPGUDP-glucose 4-epimerase5.1.3.20.473
1ps9MDE2,4-dienoyl-CoA reductase1.3.1.340.473
1sq5ADPPantothenate kinase2.7.1.330.473
3rpy27ZCyclin-dependent kinase 22.7.11.220.473
4a312CBGlycylpeptide N-tetradecanoyltransferase/0.473
1hzjUD1UDP-glucose 4-epimerase/0.472
4a322CDGlycylpeptide N-tetradecanoyltransferase/0.472
3dqrJI2Nitric oxide synthase, brain1.14.13.390.471
1rekB8LcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.470
2brhDFWSerine/threonine-protein kinase Chk12.7.11.10.470
4fkq42KCyclin-dependent kinase 22.7.11.220.469
2z4y252Geranylgeranyl pyrophosphate synthase/0.467
3coz54HPantothenate synthetase6.3.2.10.467
2fzmFADBifunctional protein PutA1.5.5.20.466
2hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.466
3isjA8DPantothenate synthetase6.3.2.10.466
4ddhMS0Pantothenate synthetase6.3.2.10.466
2iidFADL-amino-acid oxidase1.4.3.20.465
3br3ETHTH-type transcriptional regulator QacR/0.465
1dq9HMG3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.340.464
2a9y26AAdenosine kinase2.7.1.200.464
2kb2FMNUncharacterized protein/0.464
2oh02PYcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.464
1jqdSAHHistamine N-methyltransferase2.1.1.80.463
1x1dSAHC-20 methyltransferase/0.463
2vw5BC6ATP-dependent molecular chaperone HSP82/0.463
2w6zL21Biotin carboxylase6.3.4.140.463
2yj5ATPCopper-transporting ATPase/0.463
3unk0BYCyclin-dependent kinase 22.7.11.220.463
1tj2FADBifunctional protein PutA1.5.5.20.462
2qs4LY5Glutamate receptor ionotropic, kainate 1/0.462
2vwqNAPGlucose 1-dehydrogenase/0.462
4fx9FADCoenzyme A disulfide reductase1.8.1.140.462
1k7fIAVTryptophan synthase alpha chain/0.461
1x1cSAHC-20 methyltransferase/0.461
1xddAAYIntegrin alpha-L/0.461
2tprFADTrypanothione reductase1.8.1.120.461
2v2qNVG4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.461
3dzvADPHydroxyethylthiazole kinase/0.461
1ja0FMNNADPH--cytochrome P450 reductase/0.460
1rbqKEUTrifunctional purine biosynthetic protein adenosine-32.1.2.20.460
2zcvNDPQuinone oxidoreductase 21.6.5.20.460
5cmx0G6Prothrombin3.4.21.50.460
2xiq5ADMethylmalonyl-CoA mutase, mitochondrial/0.459
3dv3MEKDual specificity mitogen-activated protein kinase kinase 12.7.12.20.459
3pxyJWSCyclin-dependent kinase 22.7.11.220.459
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.459
4h4uNDPBiphenyl dioxygenase ferredoxin reductase subunit/0.459
1i8tFADUDP-galactopyranose mutase5.4.99.90.458
2ccu2D9Heat shock protein HSP 90-alpha/0.458
3coy53HPantothenate synthetase6.3.2.10.458
3h3qH13Collagen type IV alpha-3-binding protein/0.458
2vtjLZ4Cyclin-dependent kinase 22.7.11.220.457
3u2mFADFAD-linked sulfhydryl oxidase ALR1.8.3.20.457
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.457
4bfvZVVPantothenate kinase2.7.1.330.457
4j57FADThioredoxin reductase 21.8.1.90.457
4qjcIXEDihydrofolate reductase1.5.1.30.457
1omoNADAlanine dehydrogenase/0.456
2hruADPPhosphoribosylformylglycinamidine synthase subunit PurL/0.456
2w0hFADTrypanothione reductase/0.456
3eanFADThioredoxin reductase 1, cytoplasmic1.8.1.90.456
4jhz1KVBeta-glucuronidase3.2.1.310.456
4nd3NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.456
1vhzAPRADP compounds hydrolase NudE3.6.10.455
2btrU73Cyclin-dependent kinase 22.7.11.220.455
3rufNADUDP-N-acetylglucosamine 4-epimerase/0.455
3x2eNAIAdenosylhomocysteinase/0.455
1ijjLARActin, alpha skeletal muscle/0.454
3cgeFADCoenzyme A disulfide reductase/0.454
3oibFDAPutative acyl-CoA dehydrogenase/0.454
3oqfS51Renin3.4.23.150.454
3oqkS52Renin3.4.23.150.454
4de50JDPantothenate synthetase6.3.2.10.454
4eoi1ROCyclin-dependent kinase 22.7.11.220.454
4mcc21XtRNA (guanine-N(1)-)-methyltransferase2.1.1.2280.454
3rdqDTBStreptavidin/0.453
4hf415HcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.453
4xx0COASuccinate--CoA ligase [ADP/GDP-forming] subunit alpha, mitochondrial6.2.1.40.453
4yerADPAntibiotic ABC transporter, ATP-binding protein, putative/0.453
2io6330Wee1-like protein kinase2.7.10.20.452
2ivpATPtRNA N6-adenosine threonylcarbamoyltransferase/0.452
2w6qOA5Biotin carboxylase6.3.4.140.452
2x2rX2OKinesin-like protein KIF11/0.452
2xf3J01Uncharacterized protein/0.452
3n87N873-dehydroquinate dehydratase4.2.1.100.452
3qdzPRO_ALA_PRO_ARGProthrombin3.4.21.50.452
3u9n09HSerine/threonine-protein kinase Chk12.7.11.10.452
4i13FOLDihydrofolate reductase1.5.1.30.452
3reyXACAdenosine receptor A2a/0.452
1q8wM77cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.451
2e8uIPEGeranylgeranyl pyrophosphate synthase/0.451
3ezvEZVCyclin-dependent kinase 22.7.11.220.451
3lqfNADGalactitol dehydrogenase/0.451
4fkr45KCyclin-dependent kinase 22.7.11.220.451
4lj6ACPChaperone protein ClpB/0.451
4mlp2CXCryptochrome-2/0.451
2j9mPY8Cyclin-dependent kinase 22.7.11.220.450
3dmgSAHProbable ribosomal RNA small subunit methyltransferase/0.450
3hmvHBTcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.450
3njoPYVAbscisic acid receptor PYR1/0.450
3s8pSAMHistone-lysine N-methyltransferase KMT5B2.1.1.430.450
3tk0FADFAD-linked sulfhydryl oxidase ALR1.8.3.20.450
4hnc0UTMandelate racemase/0.450
4nm9FADBifunctional protein PutA/0.450
1rneC60Renin3.4.23.150.449
1svlADPLarge T antigen3.6.40.449
2e9v85ASerine/threonine-protein kinase Chk12.7.11.10.449
3nxvD2FDihydrofolate reductase1.5.1.30.449
3s00Z60Cyclin-dependent kinase 22.7.11.220.449
4ekl0RFRAC-alpha serine/threonine-protein kinase2.7.11.10.449
4req5ADMethylmalonyl-CoA mutase large subunit5.4.99.20.449
4ynmSAMHistone-lysine N-methyltransferase ASH1L2.1.1.430.449
5h86BCOHistone acetyltransferase KAT2A2.3.1.480.449
1e5qNDPSaccharopine dehydrogenase [NADP(+), L-glutamate-forming]1.5.1.100.448
1xvaSAMGlycine N-methyltransferase2.1.1.200.448
2oc4IMHPurine nucleoside phosphorylase2.4.2.10.448
2q2zMKKKinesin-like protein KIF11/0.448
2uzwSS4cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.448
3cow52HPantothenate synthetase6.3.2.10.448
3lzxNAPFerredoxin--NADP reductase 21.18.1.20.448
3mauEXTPutative sphingosine-1-phosphate lyase/0.448
3nxrD2DDihydrofolate reductase1.5.1.30.448
3qvsNADMyo-inositol-1-phosphate synthase (Ino1)/0.448
3rmf20ZCyclin-dependent kinase 22.7.11.220.448
3rvhHQ2Lysine-specific demethylase 4A1.14.110.448
4acm7YGCyclin-dependent kinase 22.7.11.220.448
4ejvLCLTranscriptional regulator TcaR/0.448
4jajXU1Aurora kinase A2.7.11.10.448
4l4dCAMCamphor 5-monooxygenase1.14.15.10.448
4ldkFADFAD-linked sulfhydryl oxidase ALR1.8.3.20.448
1msmJE2Gag-Pol polyprotein3.4.23.160.447
1xh7R96cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.447
2qboCAMCamphor 5-monooxygenase1.14.15.10.447
3abaFLICytochrome P450/0.447
3cqwCQWRAC-alpha serine/threonine-protein kinase2.7.11.10.447
3lpgZ78Beta-glucuronidase3.2.1.310.447
3ocpCMPcGMP-dependent protein kinase 12.7.11.120.447
3ral04ZCyclin-dependent kinase 22.7.11.220.447
4g34924Eukaryotic translation initiation factor 2-alpha kinase 32.7.11.10.447
4hfp15UProthrombin3.4.21.50.447
4wlvNADMalate dehydrogenase, mitochondrial1.1.1.370.447
1n77ATPGlutamate--tRNA ligase6.1.1.170.446
2clqSTUMitogen-activated protein kinase kinase kinase 52.7.11.250.446
2jk6FADTrypanothione reductase/0.446
2vf3GVS4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.446
2vwhNAPGlucose 1-dehydrogenase/0.446
3c35KAIGlutamate receptor ionotropic, kainate 1/0.446
3elbC5PEthanolamine-phosphate cytidylyltransferase2.7.7.140.446
3nunJMZ3-phosphoinositide-dependent protein kinase 12.7.11.10.446
3pdqKC6Lysine-specific demethylase 4A1.14.110.446
3qe2FMNNADPH--cytochrome P450 reductase/0.446
3r7iX9ICyclin-dependent kinase 22.7.11.220.446
3sni546cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
3tkiS25Serine/threonine-protein kinase Chk12.7.11.10.446
4ajfF03cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
4emdC5P4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.446
4djhJDCKappa-type opioid receptor/0.446
1bxoPP7Penicillopepsin-13.4.23.200.445
1ke5LS1Cyclin-dependent kinase 22.7.11.220.445
1x1bSAHC-20 methyltransferase/0.445
2byi2DDHeat shock protein HSP 90-alpha/0.445
2cftPLPPyridoxal phosphate phosphatase/0.445
2oapANPType II secretion system protein (GspE-2)/0.445
3d91REMRenin3.4.23.150.445
3jpuTY4Transcriptional activator protein LasR/0.445
3mn6ATPActin-5C/0.445
4lb2DM5Serum albumin/0.445
1p0hACOMycothiol acetyltransferase2.3.1.1890.444
2cdz23DSerine/threonine-protein kinase PAK 42.7.11.10.444
2cv1ATPGlutamate--tRNA ligase6.1.1.170.444
2e9n76ASerine/threonine-protein kinase Chk12.7.11.10.444
3djjFADGlutathione reductase, mitochondrial1.8.1.70.444
3prfFP3Serine/threonine-protein kinase B-raf2.7.11.10.444
3qqhX0ACyclin-dependent kinase 22.7.11.220.444
4gv10XZRAC-alpha serine/threonine-protein kinase2.7.11.10.444
1u33LM2Pancreatic alpha-amylase/0.443
2fznFADBifunctional protein PutA1.5.5.20.443
2gblATPCircadian clock protein kinase KaiC2.7.11.10.443
2ohiFMNType A flavoprotein FprA10.443
2x7dEGBKinesin-like protein KIF11/0.443
2zruFMNIsopentenyl-diphosphate delta-isomerase/0.443
3ix8TX3Transcriptional activator protein LasR/0.443
3nuuJOZ3-phosphoinositide-dependent protein kinase 12.7.11.10.443
3nxyD2HDihydrofolate reductase1.5.1.30.443
3otbDGTProbable tRNA(His) guanylyltransferase2.7.7.790.443
3sqzCOAPutative hydroxymethylglutaryl-CoA synthase/0.443
4cdmFADDeoxyribodipyrimidine photolyase/0.443
4mk029XBeta-adrenergic receptor kinase 12.7.11.150.443
4xczFONQdtf/0.443
4y93746Tyrosine-protein kinase/0.443
5dc5B3NHistone deacetylase 83.5.1.980.443
5fdg0N8Polymerase acidic protein/0.443
1k22MELProthrombin3.4.21.50.442
1n2hPAJPantothenate synthetase6.3.2.10.442
2e08SAHDiphthine synthase/0.442
2gu8796cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.442
2pckSAHDiphthine synthase/0.442
2rlcCHDCholoylglycine hydrolase3.5.1.240.442
2uztSS3cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.442
2ydkYDKSerine/threonine-protein kinase Chk12.7.11.10.442
3a0tADPSensor histidine kinase/0.442
3anlSYC1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.442
3ingNDPHomoserine dehydrogenase related protein/0.442
3ix4TX1Transcriptional activator protein LasR/0.442
3ntdFADFAD-dependent pyridine nucleotide-disulphide oxidoreductase/0.442
3ox34X4Ribosyldihydronicotinamide dehydrogenase [quinone]/0.442
3sp9IL2Peroxisome proliferator-activated receptor delta/0.442
4bz7B3NHistone deacetylase/0.442
4kp5E1FCarbonic anhydrase 124.2.1.10.442
4qa0SHHHistone deacetylase 83.5.1.980.442
1pxlCK4Cyclin-dependent kinase 22.7.11.220.441
1ro98BRcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.441
2bkzSBCCyclin-dependent kinase 22.7.11.220.441
2bn4FMNNADPH--cytochrome P450 reductase/0.441
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.441
2e7rSAHDiphthine synthase/0.441
2r7b2533-phosphoinositide-dependent protein kinase 12.7.11.10.441
2wecPP5Penicillopepsin-13.4.23.200.441
3b6pTMPThree-prime repair exonuclease 13.1.11.20.441
3btjDEQHTH-type transcriptional regulator QacR/0.441
3ituIBMcGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.441
3r7eX88Cyclin-dependent kinase 22.7.11.220.441
3swrSFGDNA (cytosine-5)-methyltransferase 12.1.1.370.441
4ftq4HKSerine/threonine-protein kinase Chk12.7.11.10.441
4j31FADKynurenine 3-monooxygenase/0.441
4qenSAHHistone-lysine N-methyltransferase, H3 lysine-9 specific SUVH42.1.1.430.441
4xvuATPATPase GET3/0.441
5bxySAHPutative RNA methylase family UPF0020/0.441
3qakUKAAdenosine receptor A2a/0.441
1bk0ACVIsopenicillin N synthase1.21.3.10.440
1bwsNDPGDP-L-fucose synthase/0.440
1f17NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.440
1jwtBLIProthrombin3.4.21.50.440
1k6tXN1Gag-Pol polyprotein3.4.23.160.440
1ke9LS5Cyclin-dependent kinase 22.7.11.220.440
1lf3EH5Plasmepsin-23.4.23.390.440
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.440
1oc1ASVIsopenicillin N synthase1.21.3.10.440
1suiFRECaffeoyl-CoA O-methyltransferase2.1.1.1040.440
1tj0FADBifunctional protein PutA1.5.5.20.440
2brbPFQSerine/threonine-protein kinase Chk12.7.11.10.440
2phkATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform2.7.11.190.440
2x3fAPCPantothenate synthetase/0.440
2ylxFADPhenylacetone monooxygenase1.14.13.920.440
3af0GDPPantothenate kinase2.7.1.330.440
3gwfNAPCyclohexanone monooxygenase/0.440
3ivcFG4Pantothenate synthetase6.3.2.10.440
3ntaFADFAD-dependent pyridine nucleotide-disulphide oxidoreductase/0.440
3qtv06PProthrombin3.4.21.50.440
4q0kGA3Phytohormone-binding protein/0.440
4tm1FDAKtzI/0.440
4ej4EJ4Delta-type opioid receptor/0.440