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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
4dx9SER_ALA_VAL_THRIntegrin beta-1

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
4dx9SER_ALA_VAL_THRIntegrin beta-1/1.000
4dx9SER_ALA_VAL_THRIntegrin beta-1-binding protein 1/1.000
1mp0NADAlcohol dehydrogenase class-31.1.1.10.494
4gl4NAIAlcohol dehydrogenase class-3/0.486
4g7gVFVLanosterol 14-alpha-demethylase/0.485
3efwAK8Aurora kinase A2.7.11.10.484
3vyeVYERenin3.4.23.150.482
1vikBAYGag-Pol polyprotein/0.481
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.480
1ma0NADAlcohol dehydrogenase class-31.1.1.10.479
1tehNADAlcohol dehydrogenase class-31.1.1.10.479
3b20NADGlyceraldehyde-3-phosphate dehydrogenase/0.479
1kkq471Peroxisome proliferator-activated receptor alpha/0.474
1rneC60Renin3.4.23.150.474
4z64ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.474
3gw9VNILanosterol 14-alpha-demethylase/0.473
2a94AP0L-lactate dehydrogenase1.1.1.270.472
4i8zG08Gag-Pol polyprotein3.4.23.160.472
2fzwNADAlcohol dehydrogenase class-31.1.1.10.471
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.471
3qv1NADGlyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic1.2.1.130.471
2y8qADP5'-AMP-activated protein kinase subunit gamma-1/0.470
3ukoNADAlcohol dehydrogenase class-3/0.470
1t2cNAIL-lactate dehydrogenase1.1.1.270.469
1mjbACOHistone acetyltransferase ESA1/0.468
2p3b3TLV-1 PROTEASE protein/0.468
2p3b3TLV-1 protease/0.468
4q71FADBifunctional protein PutA/0.468
1w6hTITPlasmepsin-23.4.23.390.467
2hwrDRDPeroxisome proliferator-activated receptor gamma/0.466
3keuATPPyridoxal kinase2.7.1.350.466
3t2kFADSulfide-quinone reductase/0.466
4g3jVNTLanosterol 14-alpha-demethylase/0.466
1mj9COAHistone acetyltransferase ESA1/0.465
2ou2ACOHistone acetyltransferase KAT5/0.465
3ii43IIDihydrolipoyl dehydrogenase1.8.1.40.465
3pwm017Gag-Pol polyprotein3.4.23.160.464
3s43478Protease/0.464
3to6LYS_CMCHistone acetyltransferase ESA1/0.464
3tog079Gag-Pol polyprotein2.7.7.490.464
5jscFADPutative acyl-CoA dehydrogenase/0.464
1me6IVSPlasmepsin-23.4.23.390.463
1xe55FEPlasmepsin-23.4.23.390.462
3fhyATPPyridoxal kinase2.7.1.350.462
3lpiZ74Beta-secretase 13.4.23.460.462
3uylTYDProbable NDP-rhamnosyltransferase/0.462
3v5l0G1Tyrosine-protein kinase ITK/TSK2.7.10.20.462
1hbvGANGag-Pol polyprotein/0.461
1lf3EH5Plasmepsin-23.4.23.390.461
1xddAAYIntegrin alpha-L/0.461
1xl5190Gag-Pol polyprotein3.4.23.160.461
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.461
2gjlFMNNitronate monooxygenase1.13.12.160.460
3slz3TLPutative gag-pro-pol polyprotein/0.460
1bim0QBRenin3.4.23.150.459
1fy7COAHistone acetyltransferase ESA1/0.459
1yb5NAPQuinone oxidoreductase1.6.5.50.459
2rcyNAPPyrroline-5-carboxylate reductase/0.458
2vzzSCAPutative succinyl-CoA transferase Rv0802c2.8.30.458
3lpkZ76Beta-secretase 13.4.23.460.458
4a4qUX9Pol protein/0.458
4eakATP5'-AMP-activated protein kinase subunit gamma-1/0.458
1ivq0PXGag-Pol polyprotein/0.457
3bgbLJGGag-Pol polyprotein3.4.23.160.457
3el9DR7Gag-Pol polyprotein3.4.23.160.457
3r7kFDAProbable acyl CoA dehydrogenase/0.457
1fm4DXCMajor pollen allergen Bet v 1-L/0.456
2cntCOARibosomal-protein-alanine acetyltransferase/0.456
2zjmF1MBeta-secretase 13.4.23.460.456
3b70NAPEnoyl reductase LovC10.456
3s3r0IWCathepsin B-like peptidase (C01 family)/0.456
3toh079Gag-Pol polyprotein2.7.7.490.456
3up0D7SaceDAF-12/0.456
1lf2R37Plasmepsin-23.4.23.390.455
2ien017Gag-Pol polyprotein3.4.23.160.455
2q4bNAPUncharacterized protein At5g02240/0.455
3ig6438Urokinase-type plasminogen activator3.4.21.730.455
3lqfNADGalactitol dehydrogenase/0.455
3nu4478Gag-Pol polyprotein3.4.23.160.455
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.455
4qmpDKISerine/threonine-protein kinase 242.7.11.10.455
4z63ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.455
1ybmNAPUncharacterized protein At5g02240/0.454
2g1s4IGRenin3.4.23.150.454
3h0aD30Peroxisome proliferator-activated receptor gamma/0.454
3sm2478Putative gag-pro-pol polyprotein/0.454
3ukaFADUDP-galactopyranose mutase/0.454
3up5FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.454
3vydVYDRenin3.4.23.150.454
4ambDUDPutative glycosyl transferase/0.454
4b7xNAPProbable oxidoreductase/0.454
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.454
4qgiROCGag-Pol polyprotein3.4.23.160.454
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.453
1pmn984Mitogen-activated protein kinase 102.7.11.240.453
1tj0FADBifunctional protein PutA1.5.5.20.453
2f4bEHAPeroxisome proliferator-activated receptor gamma/0.453
3ic9FADPutative dihydrolipoamide dehydrogenase/0.453
3ljtLA3A disintegrin and metalloproteinase with thrombospondin motifs 53.4.240.453
3vswR31Renin3.4.23.150.453
4ri1ACOUDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine N-acetyltransferase2.3.1.2020.453
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.453
1g63FMNEpidermin decarboxylase4.1.10.452
2p83MR0Beta-secretase 13.4.23.460.452
2r3tG4GGag-Pol polyprotein3.4.23.160.452
2zb3NDPProstaglandin reductase 21.3.1.480.452
3cgcFADCoenzyme A disulfide reductase/0.452
3cgfJNFMitogen-activated protein kinase 102.7.11.240.452
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.452
3f1kNAPUncharacterized oxidoreductase YciK10.452
3ohf3HFBeta-secretase 13.4.23.460.452
3sp6IL2Peroxisome proliferator-activated receptor alpha/0.452
4z26FADPutative GMC-type oxidoreductase R13510.452
1mokFAD2-oxopropyl-CoM reductase, carboxylating1.8.1.50.451
3bva2NCGag-Pol polyprotein3.4.23.160.451
3nyg2NCGag-Pol polyprotein3.4.23.160.451
3u33FADPutative acyl-CoA dehydrogenase AidB1.3.990.451
3veu0GOBeta-secretase 13.4.23.460.451
4irnFADAnaB/0.451
4kb9G79Protease/0.451
1hygNAPL-2-hydroxycarboxylate dehydrogenase (NAD(P)(+))/0.450
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.450
2q9fC3SCholesterol 24-hydroxylase/0.450
2yvwEPUUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.450
2yxuATPPyridoxal kinase2.7.1.350.450
3ieuGDPGTPase Era/0.450
3lpjZ75Beta-secretase 13.4.23.460.450
3wagTYDGlycosyltransferase/0.450
4b79NADProbable short-chain dehydrogenase/0.450
4bc7FADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.450
4z5wILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.450
1gg5FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.449
1p0hCOAMycothiol acetyltransferase2.3.1.1890.449
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.449
4oztP1AEcdysone receptor, putative/0.449
1bil0IURenin3.4.23.150.448
1gqtACPRibokinase/0.448
1iiq0ZRGag-Pol polyprotein3.4.23.160.448
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.448
2p33J07Mitogen-activated protein kinase 102.7.11.240.448
2po7CHDFerrochelatase, mitochondrial4.99.1.10.448
2v13C40Renin3.4.23.150.448
3d1yROCGag-Pol polyprotein3.4.23.160.448
3e5rNADGlyceraldehyde-3-phosphate dehydrogenase 1, cytosolic1.2.1.120.448
3own3OWRenin3.4.23.150.448
3sglFADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC/0.448
4dl9NADS-(hydroxymethyl)glutathione dehydrogenase/0.448
4nbwNADShort-chain dehydrogenase/reductase SDR/0.448
1fej2NCGag-Pol polyprotein3.4.23.160.447
1msmJE2Gag-Pol polyprotein3.4.23.160.447
1rkxNADCDP-D-glucose-4,6-dehydratase/0.447
1rv1IMZE3 ubiquitin-protein ligase Mdm26.3.20.447
2fxdDR7Pol polyprotein/0.447
2iko7IGRenin3.4.23.150.447
2xlsFADPutative flavin-containing monooxygenase/0.447
2z54AB1Gag-Pol polyprotein3.4.23.160.447
3em3478Gag-Pol polyprotein3.4.23.160.447
3k4nFADPyranose 2-oxidase/0.447
3oxv478Gag-Pol polyprotein3.4.23.160.447
3vqsJT1Genome polyprotein/0.447
4kvmSER_ALA_SER_GLU_1XEN-terminal acetyltransferase A complex catalytic subunit ard12.3.1.880.447
4l7f1V5Mitogen-activated protein kinase 82.7.11.240.447
4nwzFADFAD-dependent pyridine nucleotide-disulfide oxidoreductase/0.447
4y9qC2EUncharacterized protein/0.447
5dp2NAPCurF/0.447
1h2bNAJNAD-dependent alcohol dehydrogenase/0.446
1ha3MAUElongation factor Tu-A/0.446
3ckxSTUSerine/threonine-protein kinase 242.7.11.10.446
3nsh957Beta-secretase 13.4.23.460.446
3qlrNDPDihydrofolate reductase1.5.1.30.446
3umoATPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.446
4i0i957Beta-secretase 13.4.23.460.446
4qi7FADCellobiose dehydrogenase/0.446
1egeFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.445
1hiiC20Gag-Pol polyprotein/0.445
1mjaCOAHistone acetyltransferase ESA1/0.445
1yxqSWIActin, alpha skeletal muscle/0.445
2fxeDR7Gag-Pol polyprotein3.4.23.160.445
2i4xKGQProtease/0.445
2y0mACOHistone acetyltransferase KAT8/0.445
3cyxROCGag-Pol polyprotein3.4.23.160.445
3ekp478Gag-Pol polyprotein3.4.23.160.445
3qaaG04Gag-Pol polyprotein3.4.23.160.445
3vn2TLSPeroxisome proliferator-activated receptor gamma/0.445
3zkpERBErythromycin C-12 hydroxylase1.14.13.1540.445
4dmmNAP3-oxoacyl-[acyl-carrier-protein] reductase/0.445
4g74FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial1.6.5.90.445
4jq9FADDihydrolipoyl dehydrogenase/0.445
4qi5FADCellobiose dehydrogenase/0.445
1drhNAPDihydrofolate reductase1.5.1.30.444
1t7i017Gag-Pol polyprotein3.4.23.160.444
1z1rHBHGag-Pol polyprotein3.4.23.160.444
2g1o2IGRenin3.4.23.150.444
2g1r3IGRenin3.4.23.150.444
2gmhFADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial1.5.5.10.444
2i4qUA4Renin3.4.23.150.444
3b6zCO7Enoyl reductase LovC10.444
3cmcNADGlyceraldehyde-3-phosphate dehydrogenase/0.444
3d4pNADL-lactate dehydrogenase 11.1.1.270.444
3g49NAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.444
3hjaNADGlyceraldehyde-3-phosphate dehydrogenase/0.444
3lzs017Gag-Pol polyprotein3.4.23.160.444
3te5NAI5'-AMP-activated protein kinase subunit gamma/0.444
3vsxR32Renin3.4.23.150.444
4dplNAPMalonyl-CoA reductase1.2.1.750.444
4h49L29Macrophage metalloelastase3.4.24.650.444
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.443
1udyFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.443
2qnnQN1Gag-Pol polyprotein3.4.23.160.443
3liqE14Protease/0.443
3livE16Protease/0.443
3nu3478Gag-Pol polyprotein3.4.23.160.443
3sz0FADSulfide-quinone reductase/0.443
3umpATPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.443
4d89BXDBeta-secretase 13.4.23.460.443
4dfg0JVGag-Pol polyprotein3.4.23.160.443
4i0h1BLBeta-secretase 13.4.23.460.443
5hs1VORLanosterol 14-alpha demethylase/0.443
1dxqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.442
1fm6BRLPeroxisome proliferator-activated receptor gamma/0.442
1idb0DOGag-Pol polyprotein/0.442
2bhhRYUCyclin-dependent kinase 22.7.11.220.442
2ebaFADPutative glutaryl-CoA dehydrogenase/0.442
2hizLIJBeta-secretase 13.4.23.460.442
3hyoADPPyridoxal kinase/0.442
3i5zZ48Mitogen-activated protein kinase 12.7.11.240.442
3pm9FADPutative oxidoreductase/0.442
3q5lKX2Heat shock protein 83-1/0.442
3slkNDPPolyketide synthase extender module 2/0.442
4frkDWDBeta-secretase 13.4.23.460.442
4gddFADUDP-galactopyranose mutase/0.442
4h3i10VBeta-secretase 13.4.23.460.442
5eoxADPType 4 fimbrial biogenesis protein PilM/0.442
1egdFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.441
2aqiNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.441
2f81017Gag-Pol polyprotein3.4.23.160.441
3kddJZQGag-Pol polyprotein3.4.23.160.441
3o9gF53Gag-Pol polyprotein/0.441
3oibFDAPutative acyl-CoA dehydrogenase/0.441
4fj2NAP17beta-hydroxysteroid dehydrogenase/0.441
4rquNADAlcohol dehydrogenase class-P/0.441
5ctsCMCCitrate synthase, mitochondrial2.3.3.10.441
1cscCMCCitrate synthase, mitochondrial2.3.3.10.440
1dg8NDPDihydrofolate reductase1.5.1.30.440
2dwbANPAurora kinase A2.7.11.10.440
2h9iEADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.440
2il2LIXRenin3.4.23.150.440
2qo5CHDFatty acid-binding protein 10-A, liver basic/0.440
2vkmBSDBeta-secretase 13.4.23.460.440
2wedPP6Penicillopepsin-13.4.23.200.440
3d91REMRenin3.4.23.150.440
3ggaGGWGag-Pol polyprotein/0.440
3icrFADCoenzyme A disulfide reductase/0.440
3linE13Protease/0.440
3r4b74TGag-Pol polyprotein/0.440
3uozFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.440
3vyfVYFRenin3.4.23.150.440
4hdfG52Gag-Pol polyprotein3.4.23.160.440
4trnNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.440