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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
3am3TCLEnoyl-ACP reductase

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity
Align
3am3TCLEnoyl-ACP reductase/1.000
3lt2FT3Enoyl-ACP reductase/0.773
4igeCHJEnoyl-acyl carrier reductase/0.705
3lt1FT2Enoyl-ACP reductase/0.695
3lt0FT1Enoyl-ACP reductase/0.670
3lsyFT0Enoyl-ACP reductase/0.662
3am4FT1Enoyl-ACP reductase/0.634
2foiJPAEnoyl-acyl carrier reductase/0.613
1uh5TCLEnoyl-ACP reductase/0.604
2o2yTCLEnoyl-ACP reductase/0.597
1nhgTCLEnoyl-ACP reductase/0.591
2o2sTCLEnoyl-acyl carrier reductase/0.589
1nhwTCCEnoyl-ACP reductase/0.584
1zw1TN5Enoyl-ACP reductase/0.583
1zsnTN2Enoyl-ACP reductase/0.577
2op07PCEnoyl-ACP reductase/0.575
3f4bTCLEnoyl-acyl carrier protein reductase/0.574
1zxlJP1Enoyl-ACP reductase/0.571
1nnuTCTEnoyl-ACP reductase/0.566
3am5TCLEnoyl-ACP reductase/0.561
5coqTCUEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.546
5cp8TCUEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.539
3fnhJPJEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.515
3nrcTCLEnoyl-[acyl-carrier-protein] reductase [NADH]/0.510
4g1z0VPVitamin D3 receptor A/0.503
3uic09TEnoyl-[acyl-carrier-protein] reductase [NADH]/0.499
3nj8NJ8Enoyl-acyl carrier reductase/0.489
4g1y0VOVitamin D3 receptor A/0.487
2gcgNDPGlyoxylate reductase/hydroxypyruvate reductase1.1.1.790.485
4fhh0U3Vitamin D3 receptor A/0.483
5bsgNAPPyrroline-5-carboxylate reductase/0.481
1rkhVD2Vitamin D3 receptor/0.480
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.480
1cg6MTAS-methyl-5'-thioadenosine phosphorylase/0.478
4dbzNDPPutative ketoacyl reductase1.3.10.477
1tl7FOKAdenylate cyclase type 2/0.475
1tl7FOKAdenylate cyclase type 5/0.475
3vt7VDXVitamin D3 receptor/0.475
2nsd4PIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.472
3w5p4OAVitamin D3 receptor/0.472
4uyf73BBromodomain-containing protein 2/0.472
1gebCAMCamphor 5-monooxygenase1.14.15.10.471
1pq944BOxysterols receptor LXR-beta/0.471
2hcdBIVVitamin D3 receptor A/0.471
3fne8PCEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.470
4q0a4OAVitamin D3 receptor A/0.470
3fwjCAMCamphor 5-monooxygenase1.14.15.10.469
3w0hW12Vitamin D3 receptor/0.469
2abjCBCBranched-chain-amino-acid aminotransferase, cytosolic2.6.1.420.468
3cppCAMCamphor 5-monooxygenase1.14.15.10.468
3vt9YI4Vitamin D3 receptor/0.468
1h65GDPTranslocase of chloroplast 343.6.50.467
1vrwNAIEnoyl-ACP reductase/0.467
2qbnCAMCamphor 5-monooxygenase1.14.15.10.467
2z97CAMCamphor 5-monooxygenase1.14.15.10.467
3ijdC2FMethylenetetrahydrofolate reductase/0.467
4g210VPVitamin D3 receptor A/0.467
5a88ADPRiboflavin biosynthesis protein RibF2.7.1.260.467
1ie8KH1Vitamin D3 receptor/0.466
1xny191Propionyl-CoA carboxylase complex B subunit/0.466
1jipKTN6-deoxyerythronolide B hydroxylase/0.465
2c27ACOMycothiol acetyltransferase2.3.1.1890.465
2qblCAMCamphor 5-monooxygenase1.14.15.10.465
3wrlCAMCamphor 5-monooxygenase1.14.15.10.465
3wrmCAMCamphor 5-monooxygenase1.14.15.10.465
3zu2NAIEnoyl-[acyl-carrier-protein] reductase [NADH]/0.465
1e3wNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.464
2y6fM9FIsopenicillin N synthase1.21.3.10.464
4enhFVXCholesterol 24-hydroxylase/0.464
4rupH97Vitamin D3 receptor A/0.464
1dz6CAMCamphor 5-monooxygenase1.14.15.10.463
1u7tNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.463
3dndLL2cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.463
3fwfCAMCamphor 5-monooxygenase1.14.15.10.463
3mdmFJZCholesterol 24-hydroxylase/0.463
4q72FADBifunctional protein PutA/0.463
1t88CAMCamphor 5-monooxygenase1.14.15.10.462
3w0gW07Vitamin D3 receptor/0.462
4egnTWOCytochrome P450/0.462
4g2h0VQVitamin D3 receptor A/0.462
4q73FADBifunctional protein PutA/0.462
5jlaNADPutative short-chain dehydrogenase/reductase/0.462
1me6IVSPlasmepsin-23.4.23.390.461
1yrdCAMCamphor 5-monooxygenase1.14.15.10.461
2q9fC3SCholesterol 24-hydroxylase/0.461
3qvpFADGlucose oxidase1.1.3.40.461
3vtbTKAVitamin D3 receptor/0.461
4l4bCAMCamphor 5-monooxygenase1.14.15.10.461
5hwrCOAHydroxymethylglutaryl-CoA synthase/0.461
2hbhXE4Vitamin D3 receptor A/0.460
2pncCLUPrimary amine oxidase, liver isozyme/0.460
2zaxCAMCamphor 5-monooxygenase1.14.15.10.460
3vt8YI3Vitamin D3 receptor/0.460
4ure1PSCyclohexanol dehydrogenase/0.460
1phgMYTCamphor 5-monooxygenase1.14.15.10.459
1t86CAMCamphor 5-monooxygenase1.14.15.10.459
1xddAAYIntegrin alpha-L/0.459
1zeoC01Peroxisome proliferator-activated receptor gamma/0.459
2cibCM6Lanosterol 14-alpha demethylase1.14.13.700.459
2uzuL20cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.459
3mdvCL6Cholesterol 24-hydroxylase/0.459
3rukAERSteroid 17-alpha-hydroxylase/17,20 lyase/0.459
3vrwYS5Vitamin D3 receptor/0.459
2aibERGBeta-elicitin cinnamomin/0.458
2lbaCHOFatty acid binding protein 6/0.458
2qboCAMCamphor 5-monooxygenase1.14.15.10.458
2vbpVB1Isopenicillin N synthase1.21.3.10.458
4fhi0S4Vitamin D3 receptor A/0.458
4q71FADBifunctional protein PutA/0.458
1ae1NAPTropinone reductase 1/0.457
1dz8CAMCamphor 5-monooxygenase1.14.15.10.457
3rbqGLY_ALA_GLY_DAOProtein unc-119 homolog A/0.457
4l8u9AZSerum albumin/0.457
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.457
2c29NAPDihydroflavonol 4-reductase/0.456
3fpzAHZThiamine thiazole synthase/0.456
3stv3HOMethylketone synthase I/0.456
4tuvCPZCytochrome P450 1191.140.456
1cydNDPCarbonyl reductase [NADPH] 21.1.1.1840.455
1dxqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.455
2d29FADAcyl-CoA dehydrogenase/0.455
2o4rVD5Vitamin D3 receptor/0.455
3lqfNADGalactitol dehydrogenase/0.455
4nvk2NYPeroxidase/0.455
4nxxGDPMitochondrial dynamics protein MID51/0.455
4r20AERCytochrome P450 family 17 polypeptide 2/0.455
4z64ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.455
1jioDEB6-deoxyerythronolide B hydroxylase/0.454
2fm5M99cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.454
2w3bNDPDihydrofolate reductase1.5.1.30.454
2wgeTLM3-oxoacyl-[acyl-carrier-protein] synthase 12.3.1.410.454
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.454
4bkz1WSMaternal embryonic leucine zipper kinase2.7.11.10.454
4g3jVNTLanosterol 14-alpha-demethylase/0.454
4r1lADPPhenylacetate-coenzyme A ligase/0.454
5hs1VORLanosterol 14-alpha demethylase/0.454
2c12FADNitroalkane oxidase1.7.3.10.453
2zl9VDAVitamin D3 receptor/0.453
2zlaVDBVitamin D3 receptor/0.453
3vtdTKDVitamin D3 receptor/0.453
4a8v2ANMajor pollen allergen Bet v 1-J/0.453
1aiqCB3Thymidylate synthase/0.452
1lsjNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.452
1nooCAHCamphor 5-monooxygenase1.14.15.10.452
1o76CAMCamphor 5-monooxygenase1.14.15.10.452
1ozhHE3Acetolactate synthase, catabolic2.2.1.60.452
2gdzNAD15-hydroxyprostaglandin dehydrogenase [NAD(+)]1.1.1.1410.452
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.452
2ji9TPWOxalyl-CoA decarboxylase4.1.1.80.452
3w5tLHPVitamin D3 receptor/0.452
4ubuCOASteroid 3-ketoacyl-CoA thiolase/0.452
2b35TCLEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.451
2i1vADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 32.7.1.1050.451
2pmdGNPTranslation initiation factor 2 subunit gamma/0.451
3cgdCOACoenzyme A disulfide reductase/0.451
3i2834NBifunctional epoxide hydrolase 23.3.2.100.451
3w0yDS4Vitamin D3 receptor/0.451
4l0qNADAlcohol dehydrogenase class-3/0.451
4mt92D6Tankyrase-12.4.2.300.451
1qbgFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.450
1y4lSVRBasic phospholipase A2 homolog 2/0.450
2fznFADBifunctional protein PutA1.5.5.20.450
2vcmM11Isopenicillin N synthase1.21.3.10.450
2ym2FADPhenylacetone monooxygenase1.14.13.920.450
3e8xNAPBH1520 protein/0.450
3kpzZNEVitamin D3 receptor/0.450
3mpjFADGlutaryl-CoA dehydrogenase1.3.99.320.450
4acg6LQGlycogen synthase kinase-3 beta2.7.11.260.450
4g2i0VQVitamin D3 receptor/0.450
4itfTFYVitamin D3 receptor/0.450
1iwiCAMCamphor 5-monooxygenase1.14.15.10.449
1mepBTNStreptavidin/0.449
1poxFADPyruvate oxidase1.2.3.30.449
1rx1NAPDihydrofolate reductase1.5.1.30.449
1s4dSAHUroporphyrinogen-III C-methyltransferase2.1.1.1070.449
2a1nCAMCamphor 5-monooxygenase1.14.15.10.449
2j14GNIPeroxisome proliferator-activated receptor delta/0.449
3ozd4CTS-methyl-5'-thioadenosine phosphorylase/0.449
4fwfFADLysine-specific histone demethylase 1B10.449
4g7gVFVLanosterol 14-alpha-demethylase/0.449
4ys22BAUncharacterized protein/0.449
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.448
1ib0FADNADH-cytochrome b5 reductase 31.6.2.20.448
1xxjUNCUricase1.7.3.30.448
2a1oCAMCamphor 5-monooxygenase1.14.15.10.448
2o4jVD4Vitamin D3 receptor/0.448
2yfeYFEPeroxisome proliferator-activated receptor gamma/0.448
3a783EVVitamin D3 receptor/0.448
3ey9TDPPyruvate dehydrogenase [ubiquinone]1.2.5.10.448
3il5B823-oxoacyl-[acyl-carrier-protein] synthase 3/0.448
3ohh3HHBeta-secretase 13.4.23.460.448
3tjsD0RCytochrome P450 3A4/0.448
3w0iO11Vitamin D3 receptor/0.448
3w2eNADNADH-cytochrome b5 reductase 31.6.2.20.448
4avlTMPPolymerase acidic protein/0.448
4l4eCAMCamphor 5-monooxygenase1.14.15.10.448
4o2bLOCTubulin beta-2B chain/0.448
1db1VDXVitamin D3 receptor/0.447
1gzuNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.447
1n2sNAIdTDP-4-dehydrorhamnose reductase1.1.1.1330.447
1oc1ASVIsopenicillin N synthase1.21.3.10.447
1vl8NAPOxidoreductase, short chain dehydrogenase/reductase family/0.447
2hasC3OVitamin D3 receptor/0.447
2q2qNADBeta-D-hydroxybutyrate dehydrogenase/0.447
2q5p241Peroxisome proliferator-activated receptor gamma/0.447
2ydjYDJSerine/threonine-protein kinase Chk12.7.11.10.447
3autNAIGlucose 1-dehydrogenase 41.1.1.470.447
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.447
3l63CAMCamphor 5-monooxygenase1.14.15.10.447
3w5rLOAVitamin D3 receptor/0.447
4lb2DM5Serum albumin/0.447
3emlZMAAdenosine receptor A2a/0.447
1p0hACOMycothiol acetyltransferase2.3.1.1890.446
1siqFADGlutaryl-CoA dehydrogenase, mitochondrial1.3.8.60.446
2o23NAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.446
2ylxFADPhenylacetone monooxygenase1.14.13.920.446
3hadNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.446
3w0jT08Vitamin D3 receptor/0.446
4l4aCAMCamphor 5-monooxygenase1.14.15.10.446
4oxiGAPEnterobactin synthetase component F-related protein/0.446
4tzk641Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.446
5dmhADP3-oxo-tetronate kinase/0.446
2feuCAMCamphor 5-monooxygenase1.14.15.10.445
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.445
2rewREWPeroxisome proliferator-activated receptor alpha/0.445
3deyDHTEstradiol 17-beta-dehydrogenase 11.1.1.620.445
3dhcCYKN-acyl homoserine lactonase AiiA3.1.1.810.445
3klmDHTEstradiol 17-beta-dehydrogenase 11.1.1.620.445
3ntaCOAFAD-dependent pyridine nucleotide-disulphide oxidoreductase/0.445
3pm0BHFCytochrome P450 1B1/0.445
4g20484Vitamin D3 receptor A/0.445
4gh5NADShort-chain dehydrogenase/reductase SDR/0.445
4u9aSTUInterleukin-1 receptor-associated kinase 42.7.11.10.445
4y95746Tyrosine-protein kinase/0.445
4z63ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.445
1iwjCAMCamphor 5-monooxygenase1.14.15.10.444
1n5dNDPCarbonyl reductase [NADPH] 1/0.444
1xe55FEPlasmepsin-23.4.23.390.444
2akoADPGlutamate 5-kinase/0.444
2ji6TPWOxalyl-CoA decarboxylase4.1.1.80.444
3dr1C5DVitamin D3 receptor A/0.444
3ibqATPPyridoxal kinase/0.444
3ozc4CTS-methyl-5'-thioadenosine phosphorylase/0.444
3qdd94MHeat shock protein HSP 90-alpha/0.444
3r374CO4-hydroxybenzoyl-CoA thioesterase3.1.2.230.444
4c3sNADAldehyde Dehydrogenase/0.444
4kkyCAMCamphor 5-monooxygenase1.14.15.10.444
4trnNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.444
1drhNAPDihydrofolate reductase1.5.1.30.443
1iy8NADLevodione reductase/0.443
1uy9PU6Heat shock protein HSP 90-alpha/0.443
1v35NAIEnoyl-ACP reductase/0.443
2ktdPUCProstaglandin-H2 D-isomerase5.3.99.20.443
2nnlNAPDihydroflavonol 4-reductase1.1.1.2190.443
2r7b2533-phosphoinositide-dependent protein kinase 12.7.11.10.443
3uyk0CXProbable NDP-rhamnosyltransferase/0.443
4ejmNAPPutative zinc-binding dehydrogenase/0.443
4ia7BIVVitamin D3 receptor A/0.443
4rvnCOAPhenylacetate-coenzyme A ligase/0.443
1axwMTXThymidylate synthase/0.442
1kceCB3Thymidylate synthase/0.442
1uy6PU3Heat shock protein HSP 90-alpha/0.442
1xe65FPPlasmepsin-23.4.23.390.442
2fvlNAPAldo-keto reductase family 1 member C41.1.1.2250.442
2givACOHistone acetyltransferase KAT8/0.442
2q2vNADBeta-D-hydroxybutyrate dehydrogenase/0.442
2q5oPPYIndole-3-pyruvate decarboxylase4.1.1.740.442
2q8sL92Peroxisome proliferator-activated receptor gamma/0.442
2vd5BI8Myotonin-protein kinase2.7.11.10.442
2zawCAMCamphor 5-monooxygenase1.14.15.10.442
2znnS44Peroxisome proliferator-activated receptor alpha/0.442
3fwgCAMCamphor 5-monooxygenase1.14.15.10.442
3kjm245Cytokinin dehydrogenase 11.5.99.120.442
3stw2TDMethylketone synthase I/0.442
4ia3BIVVitamin D3 receptor A/0.442
4iteTEYVitamin D3 receptor/0.442
4k4fK4FTankyrase-12.4.2.300.442
4nxvGDPMitochondrial dynamics protein MID51/0.442
5eccNAPDehydrofolate reductase type I/0.442
1ia3TQ5Dihydrofolate reductase1.5.1.30.441
1phePIYCamphor 5-monooxygenase1.14.15.10.441
1wntNAPL-xylulose reductase1.1.1.100.441
1yc2NADNAD-dependent protein deacylase 2/0.441
2iebZIDEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.441
2qbmCAMCamphor 5-monooxygenase1.14.15.10.441
3ansS38Bifunctional epoxide hydrolase 23.3.2.100.441
3kybFADUDP-galactopyranose mutase5.4.99.90.441
3nxxNDPDihydrofolate reductase1.5.1.30.441
3stuDK3Methylketone synthase I/0.441
3vrtYS2Vitamin D3 receptor/0.441
4ambDUDPutative glycosyl transferase/0.441
4bcrWY1Peroxisome proliferator-activated receptor alpha/0.441
4dvi2IWTankyrase-12.4.2.300.441
4eplJAIJasmonic acid-amido synthetase JAR16.3.20.441
4msg2C6Tankyrase-12.4.2.300.441
1dkfBMSRetinoic acid receptor alpha/0.440
1rx4DDFDihydrofolate reductase1.5.1.30.440
1x7hNDPPutative ketoacyl reductase1.3.10.440
1yrcCAMCamphor 5-monooxygenase1.14.15.10.440
1zrzBI1Protein kinase C iota type2.7.11.130.440
2hc4VDXVitamin D3 receptor A/0.440
2op18PCEnoyl-ACP reductase/0.440
2q5oTPWIndole-3-pyruvate decarboxylase4.1.1.740.440
2q5qTPWIndole-3-pyruvate decarboxylase4.1.1.740.440
2xikJ60Serine/threonine-protein kinase 252.7.11.10.440
2yeiXQIHeat shock protein HSP 90-alpha/0.440
2yk2YJXHeat shock protein HSP 90-alpha/0.440
2zb8IMNProstaglandin reductase 21.3.1.480.440
3bptQUE3-hydroxyisobutyryl-CoA hydrolase, mitochondrial3.1.2.40.440
3fznD7KBenzoylformate decarboxylase4.1.1.70.440
3h06VBPGlutamate receptor 2/0.440
3nf7CIWGag-Pol polyprotein/0.440
4c6uTLG3-oxoacyl-ACP synthase/0.440
4ek1CAMCamphor 5-monooxygenase1.14.15.10.440
4kfqKFQGlutamate receptor ionotropic, NMDA 1/0.440
4wdb2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.440