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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
1cqp803Integrin alpha-L

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity
Align
1cqp803Integrin alpha-L/1.000
1xddAAYIntegrin alpha-L/0.610
1rd4L08Integrin alpha-L/0.504
3g49NAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.504
4dc0NDPPutative ketoacyl reductase1.3.10.485
2chx090Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.484
2ociTYCValacyclovir hydrolase3.10.484
3ns2PYVAbscisic acid receptor PYL2/0.484
1disBDMDihydrofolate reductase1.5.1.30.483
4iarERM5-hydroxytryptamine receptor 1B/0.482
1diuBDMDihydrofolate reductase1.5.1.30.480
4q72FADBifunctional protein PutA/0.480
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.479
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.479
4q73FADBifunctional protein PutA/0.477
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.476
4v12POGMaoC like domain protein/0.476
2weyEV1cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.475
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.474
2bxqIMNSerum albumin/0.474
3qlsNDPDihydrofolate reductase1.5.1.30.474
4ryvZEAProtein LlR18A/0.474
2qblCAMCamphor 5-monooxygenase1.14.15.10.473
2rhrEMOPutative ketoacyl reductase1.3.10.473
2znq401Peroxisome proliferator-activated receptor delta/0.473
1fm6BRLPeroxisome proliferator-activated receptor gamma/0.472
4l4xNDPAmphI/0.472
4iah1DXAlr2278 protein/0.471
4qemHC4Phospholipase A2 VRV-PL-VIIIa/0.470
2zbaZBATrichothecene 3-O-acetyltransferase/0.469
4oaeCLMUncharacterized protein/0.469
4wdb2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.469
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.468
3nr4PYVAbscisic acid receptor PYL2/0.468
4a83DXCMajor pollen allergen Bet v 1-A/0.467
1i7gAZ2Peroxisome proliferator-activated receptor alpha/0.466
3vt65YIVitamin D3 receptor/0.466
4bgePYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.465
4ixd1HVIntegrin alpha-L/0.465
2npaMMBPeroxisome proliferator-activated receptor alpha/0.464
3zuyTCHTransporter/0.464
2d1yNADOxidoreductase, short-chain dehydrogenase/reductase family/0.463
2ejvNADL-threonine 3-dehydrogenase/0.463
5hs1VORLanosterol 14-alpha demethylase/0.463
1bvrNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.462
2qd3CHDFerrochelatase, mitochondrial4.99.1.10.462
3tjzGNPADP-ribosylation factor 1/0.462
4q71FADBifunctional protein PutA/0.462
1fm4DXCMajor pollen allergen Bet v 1-L/0.461
1xduSFGAclacinomycin 10-hydroxylase RdmB4.1.10.461
2g1s4IGRenin3.4.23.150.461
3byzH11Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.461
3fhxPXLPyridoxal kinase2.7.1.350.461
5dhgDGVNociceptin receptor/0.461
1jpaANPEphrin type-B receptor 22.7.10.10.460
2j3jHC4NADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.460
4a862ANMajor pollen allergen Bet v 1-A/0.460
4kp61S1cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.460
1m78NDPDihydrofolate reductase1.5.1.30.459
2gjnFMNNitronate monooxygenase1.13.12.160.459
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.459
1e6wNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.458
2gjlFMNNitronate monooxygenase1.13.12.160.458
3b9lAZZSerum albumin/0.458
3eldSFGMethyltransferase/0.458
4bfwZVWPantothenate kinase2.7.1.330.458
4jr7GNPCasein kinase II subunit alpha2.7.11.10.458
1xnyBTNPropionyl-CoA carboxylase complex B subunit/0.457
2pauD5M5'-deoxynucleotidase YfbR/0.457
4bb3KKAIsopenicillin N synthase1.21.3.10.457
1i59ANPChemotaxis protein CheA2.7.13.30.456
1xuoLA1Integrin alpha-L/0.456
3irm1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.456
4ddl0JQcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.456
1zdwFLVPrenyltransferase/0.455
2v4lABJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.455
3qf9NM8Serine/threonine-protein kinase pim-12.7.11.10.455
4bbxLKFcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.455
4j8tDOGUncharacterized PhzA/B-like protein PA3332/0.455
5uviZMAAdenosine receptor A2a/0.455
1ai9NDPDihydrofolate reductase1.5.1.30.454
1di8DTQCyclin-dependent kinase 22.7.11.220.454
1fmjRTLRetinol dehydratase/0.454
2chz093Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.454
2cy0NAPShikimate dehydrogenase (NADP(+))/0.454
2gdzNAD15-hydroxyprostaglandin dehydrogenase [NAD(+)]1.1.1.1410.454
2x0iNAIMalate dehydrogenase/0.454
3oafOAGDihydrofolate reductase1.5.1.30.454
3qlrNDPDihydrofolate reductase1.5.1.30.454
3sp6IL2Peroxisome proliferator-activated receptor alpha/0.454
3tz3B36Acetyl-CoA carboxylase/0.454
4cp4CAMCamphor 5-monooxygenase1.14.15.10.454
1f28UMPThymidylate synthase2.1.1.450.453
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.453
2ev9NAPShikimate dehydrogenase (NADP(+))/0.453
3gwfNAPCyclohexanone monooxygenase/0.453
3l6jZ90Alr2278 protein/0.453
3nga3NGCasein kinase II subunit alpha2.7.11.10.453
3p3zP3ZPutative cytochrome P450/0.453
4a86H35Major pollen allergen Bet v 1-A/0.453
5jlaNADPutative short-chain dehydrogenase/reductase/0.453
5dhhDGWNociceptin receptor/0.453
1rx8NAPDihydrofolate reductase1.5.1.30.452
2bxmIMNSerum albumin/0.452
2vigFADShort-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.10.452
3kytHC2Nuclear receptor ROR-gamma/0.452
4a81DXCMajor pollen allergen Bet v 1-A/0.452
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.452
4qecNAPElxO/0.452
4tuvCPZCytochrome P450 1191.140.452
2j5xGSPADP-ribosylation factor 6/0.451
2w9hTOPDihydrofolate reductase1.5.1.30.451
2znnS44Peroxisome proliferator-activated receptor alpha/0.451
4g6hNAIRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial1.6.5.90.451
4jv618FRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.451
4o4fATPKinase/0.451
2e0nSAHPrecorrin-2 C20-methyltransferase/0.450
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.450
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.450
2uagUMAUDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.450
2y1oT26UDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.450
3cppCAMCamphor 5-monooxygenase1.14.15.10.450
3ha5SFGHydroxymycolate synthase MmaA42.1.10.450
3l0lHC3Nuclear receptor ROR-gamma/0.450
3mg3ECHOrange carotenoid-binding protein/0.450
4hw319GInduced myeloid leukemia cell differentiation protein Mcl-1/0.450
1dyiFOLDihydrofolate reductase1.5.1.30.449
1x2hLPALipoate-protein ligase A6.3.1.200.449
2wi72KLHeat shock protein HSP 90-alpha/0.449
3tm5SFGUncharacterized protein/0.449
4e5yNDPGDP-L-fucose synthase1.1.1.2710.449
4tx9AMZPhosphoribosyl isomerase A/0.449
1e5qNDPSaccharopine dehydrogenase [NADP(+), L-glutamate-forming]1.5.1.100.448
1lf3EH5Plasmepsin-23.4.23.390.448
1ndzFR5Adenosine deaminase3.5.4.40.448
1qyxASDEstradiol 17-beta-dehydrogenase 11.1.1.620.448
2ft9CHDFatty acid-binding protein 2, liver/0.448
2fzwNADAlcohol dehydrogenase class-31.1.1.10.448
3c0i3AMPeripheral plasma membrane protein CASK2.7.11.10.448
3tnlNADShikimate dehydrogenase (NADP(+))/0.448
3vn2TLSPeroxisome proliferator-activated receptor gamma/0.448
4iqlFMNEnoyl-(Acyl-carrier-protein) reductase II/0.448
4klaCHDFerrochelatase, mitochondrial4.99.1.10.448
4oh4ANPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.448
1db56INPhospholipase A2, membrane associated/0.447
1opbRETRetinol-binding protein 2/0.447
1umlFR4Adenosine deaminase3.5.4.40.447
1y5rC0RCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.447
2c29NAPDihydroflavonol 4-reductase/0.447
2lbvEB4Extracellular fatty acid-binding protein/0.447
2qd4CHDFerrochelatase, mitochondrial4.99.1.10.447
3oibFDAPutative acyl-CoA dehydrogenase/0.447
3tvuB37Acetyl-CoA carboxylase/0.447
3vqsJT1Genome polyprotein/0.447
3wmxNADNAD dependent epimerase/dehydratase/0.447
3wv9FEGHmd co-occurring protein HcgE/0.447
4gj30XPNon-receptor tyrosine-protein kinase TYK22.7.10.20.447
4otwDB8Receptor tyrosine-protein kinase erbB-32.7.10.10.447
5iu86DZAdenosine receptor A2a/0.447
1cdeDZFPhosphoribosylglycinamide formyltransferase/0.446
1xkdNAPIsocitrate dehydrogenase [NADP]/0.446
3sqwANPATP-dependent RNA helicase MSS116, mitochondrial3.6.4.130.446
3zhqTPPMultifunctional 2-oxoglutarate metabolism enzyme1.2.4.20.446
4at3LTIBDNF/NT-3 growth factors receptor2.7.10.10.446
4bgiI4IEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.446
4dbzNDPPutative ketoacyl reductase1.3.10.446
4ejh0QACytochrome P450 2A131.14.14.10.446
4xcvNDPProbable hydroxyacid dehydrogenase protein/0.446
5e8jSAHmRNA cap guanine-N7 methyltransferase2.1.1.560.446
1agnNADAlcohol dehydrogenase class 4 mu/sigma chain1.1.1.10.445
1dxqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.445
1q51CAA1,4-dihydroxy-2-naphthoyl-CoA synthase/0.445
2cjpVPREpoxide hydrolase/0.445
3atzFMNProstaglandin F2a synthase/0.445
3jypNADQuinate/shikimate dehydrogenase (NAD(+))/0.445
3s79ASDAromatase1.14.14.140.445
3vt5YI2Vitamin D3 receptor/0.445
4z63ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.445
1blzACVIsopenicillin N synthase1.21.3.10.444
1ie9VDXVitamin D3 receptor/0.444
1sojIBMcGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.444
2rbeZMGCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.444
2vcmM11Isopenicillin N synthase1.21.3.10.444
3gbuATPUncharacterized sugar kinase PH14592.7.10.444
3jyoNADQuinate/shikimate dehydrogenase (NAD(+))/0.444
3nj0PYVAbscisic acid receptor PYL2/0.444
3rak03ZCyclin-dependent kinase 22.7.11.220.444
3vtbTKAVitamin D3 receptor/0.444
3w0hW12Vitamin D3 receptor/0.444
4iae1DXAlr2278 protein/0.444
4kwhNAPReductase homolog/0.444
4kwi1TJReductase homolog/0.444
4tzt468Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.444
5adhAPRAlcohol dehydrogenase E chain1.1.1.10.444
5iubCLRAdenosine receptor A2a/0.444
1bzfTMQDihydrofolate reductase1.5.1.30.443
1cdeGARPhosphoribosylglycinamide formyltransferase/0.443
1kquBR4Phospholipase A2, membrane associated/0.443
1kvuUPGUDP-glucose 4-epimerase5.1.3.20.443
1nytNAPShikimate dehydrogenase (NADP(+))/0.443
1so2666cGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.443
1xmmM7Gm7GpppX diphosphatase3.6.1.590.443
2f7x4EAcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.443
2k62ITLFatty acid-binding protein, liver/0.443
2po7CHDFerrochelatase, mitochondrial4.99.1.10.443
2y60M8FIsopenicillin N synthase1.21.3.10.443
3apfBMWPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
3d7kD7KBenzaldehyde lyase/0.443
3dheANDEstradiol 17-beta-dehydrogenase 11.1.1.620.443
4a61ANPPlasmid segregation protein ParM/0.443
4g1z0VPVitamin D3 receptor A/0.443
4jvf17XRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.443
4lxjLANLanosterol 14-alpha demethylase1.14.13.700.443
4oqyNDP(S)-imine reductase/0.443
4r20AERCytochrome P450 family 17 polypeptide 2/0.443
5hwqCAAHydroxymethylglutaryl-CoA synthase/0.443
5k2bZMAAdenosine receptor A2a/0.443
1udbUFGUDP-glucose 4-epimerase5.1.3.20.442
1v79FR7Adenosine deaminase3.5.4.40.442
1w6hTITPlasmepsin-23.4.23.390.442
1xorZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.442
2f4bEHAPeroxisome proliferator-activated receptor gamma/0.442
2fs4PZ1Renin3.4.23.150.442
2hamC33Vitamin D3 receptor/0.442
2nnhREACytochrome P450 2C8/0.442
2ohvNHLGlutamate racemase/0.442
2y1tDUDSPBc2 prophage-derived deoxyuridine 5'-triphosphate nucleotidohydrolase YosS3.6.1.230.442
3nmpPYVAbscisic acid receptor PYL2/0.442
4a802ANMajor pollen allergen Bet v 1-A/0.442
4lxhC1EAlpha/beta hydrolase fold/0.442
5k2cZMAAdenosine receptor A2a/0.442
1cjcFADNADPH:adrenodoxin oxidoreductase, mitochondrial1.18.1.60.441
1fm9570Peroxisome proliferator-activated receptor gamma/0.441
1hncGDNGlutathione S-transferase Mu 22.5.1.180.441
1kkq471Peroxisome proliferator-activated receptor alpha/0.441
1phgMYTCamphor 5-monooxygenase1.14.15.10.441
1r00SAHAclacinomycin 10-hydroxylase RdmB4.1.10.441
1vi2NADQuinate/shikimate dehydrogenase/0.441
2cig1DGDihydrofolate reductase1.5.1.30.441
2dfvNADL-threonine 3-dehydrogenase/0.441
2izrBRKCasein kinase I isoform gamma-32.7.11.10.441
2pnjCHDFerrochelatase, mitochondrial4.99.1.10.441
3da24MDCarbonic anhydrase 134.2.1.10.441
3invNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.441
3iw1ASDSteroid C26-monooxygenase1.14.13.1410.441
3rmf20ZCyclin-dependent kinase 22.7.11.220.441
3tscNADUncharacterized protein/0.441
3tvxPNXcAMP-specific 3',5'-cyclic phosphodiesterase 4A3.1.4.530.441
3vt7VDXVitamin D3 receptor/0.441
3zxtACPDeath-associated protein kinase 12.7.11.10.441
4ejgNCTCytochrome P450 2A131.14.14.10.441
4g1d0VKVitamin D3 receptor A/0.441
4qmySTUSerine/threonine-protein kinase 242.7.11.10.441
4z3dNDPCarbonyl reductase [NADPH] 11.1.1.1840.441
5a3bAPRSIR2 family protein/0.441
1iyzNDPProbable quinone oxidoreductase/0.440
1rj6AZMCarbonic anhydrase 144.2.1.10.440
1ro6ROLcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.440
2a92NAIL-lactate dehydrogenase/0.440
2fk8SAMHydroxymycolate synthase MmaA42.1.10.440
2hasC3OVitamin D3 receptor/0.440
2vbdV10Isopenicillin N synthase1.21.3.10.440
2z4sADPChromosomal replication initiator protein DnaA/0.440
3hcrCHDFerrochelatase, mitochondrial4.99.1.10.440
3ieuGDPGTPase Era/0.440
3lxdFADFAD-dependent pyridine nucleotide-disulfide oxidoreductase/0.440
3vtcTK3Vitamin D3 receptor/0.440
4a8v2ANMajor pollen allergen Bet v 1-J/0.440
4dfrMTXDihydrofolate reductase1.5.1.30.440
4i8vBHFCytochrome P450 1A11.14.14.10.440
4qzuRTLRetinol-binding protein 2/0.440
4wda2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.440
4y8wSTRSteroid 21-hydroxylase/0.440