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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
4lj8ADPChaperone protein ClpB

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4lj8ADPChaperone protein ClpB/1.000
4lj6ACPChaperone protein ClpB/0.701
4ljaACPChaperone protein ClpB/0.687
4fcwADPChaperone protein ClpB/0.596
4lj5ADPChaperone protein ClpB/0.567
4lj9ACPChaperone protein ClpB/0.544
1qvrANPChaperone protein ClpB/0.535
1g41ADPATP-dependent protease ATPase subunit HslU/0.532
4fd2ADPChaperone protein ClpB/0.524
4lj7MNTChaperone protein ClpB/0.520
1e94ANPATP-dependent protease ATPase subunit HslU/0.519
1im2ADPATP-dependent protease ATPase subunit HslU/0.510
3isjA8DPantothenate synthetase6.3.2.10.501
4iqlFMNEnoyl-(Acyl-carrier-protein) reductase II/0.493
2zjmF1MBeta-secretase 13.4.23.460.491
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.488
3coy53HPantothenate synthetase6.3.2.10.488
1ht2ADPATP-dependent protease ATPase subunit HslU/0.480
2hxq373Serine/threonine-protein kinase Chk12.7.11.10.480
4b99R4LMitogen-activated protein kinase 72.7.11.240.479
4djaFAD(6-4) photolyase/0.479
2y8qADP5'-AMP-activated protein kinase subunit gamma-1/0.478
5hg0SAMPantothenate synthetase/0.478
3qihNI7Gag-Pol polyprotein3.4.23.160.477
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.476
1rdwLARActin, alpha skeletal muscle/0.476
4aw0ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.476
4b1vLABActin, alpha skeletal muscle/0.476
3kb1ADPIron-sulfur cluster carrier protein/0.475
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.474
2c3lIDZSerine/threonine-protein kinase Chk12.7.11.10.473
4aicNDP1-deoxy-D-xylulose 5-phosphate reductoisomerase/0.472
1c2tNHSPhosphoribosylglycinamide formyltransferase/0.471
1t85CAMCamphor 5-monooxygenase1.14.15.10.471
3g7jGTXGlutathione transferase GST1-4/0.471
4ddhMS0Pantothenate synthetase6.3.2.10.471
4jx1CAHCamphor 5-monooxygenase1.14.15.10.471
1in5ADPHolliday junction ATP-dependent DNA helicase RuvB/0.470
2vw5BC6ATP-dependent molecular chaperone HSP82/0.469
2fxv5GPXanthine phosphoribosyltransferase2.4.2.220.468
3qd43Q63-phosphoinositide-dependent protein kinase 12.7.11.10.468
1n2hPAJPantothenate synthetase6.3.2.10.466
2cduFADNADH oxidase/0.466
3t5iSER_SER_CMT_FARRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.466
4hnc0UTMandelate racemase/0.466
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.465
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.465
2pwrG4GGag-Pol polyprotein3.4.23.160.465
4a99FADTetX family tetracycline inactivation enzyme/0.465
1o76CAMCamphor 5-monooxygenase1.14.15.10.464
2ql6ADPNicotinamide riboside kinase 1/0.464
3bgcLJHGag-Pol polyprotein3.4.23.160.464
5dp2NAPCurF/0.464
1ofhADPATP-dependent protease ATPase subunit HslU/0.463
1omoNADAlanine dehydrogenase/0.463
2vtbFADCryptochrome DASH, chloroplastic/mitochondrial/0.463
4fad0TBPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.463
1e8zSTUPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.462
2a1y5GPGMP reductase/0.462
2y8lADP5'-AMP-activated protein kinase subunit gamma-1/0.462
3gnqNADGlyceraldehyde-3-phosphate dehydrogenase/0.462
5dhhDGWNociceptin receptor/0.462
2cu0XMPInosine-5'-monophosphate dehydrogenase/0.461
2qnqQN3Gag-Pol polyprotein3.4.23.160.461
2wtdZZKSerine/threonine-protein kinase Chk22.7.11.10.461
2yr5FADPhenylalanine 2-monooxygenase precursor1.13.12.90.461
4i9n1E5L-lactate dehydrogenase A chain1.1.1.270.461
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.460
2aa3AP0L-lactate dehydrogenase/0.460
3d8bADPFidgetin-like protein 13.6.40.460
4l4fCAMCamphor 5-monooxygenase1.14.15.10.460
5ackATP3-phosphoinositide-dependent protein kinase 12.7.11.10.460
5kwvANPPantothenate synthetase/0.460
1me8RVPInosine-5'-monophosphate dehydrogenase/0.459
1rbqKEUTrifunctional purine biosynthetic protein adenosine-32.1.2.20.459
2vprTDCTetracycline repressor protein class H/0.459
3c1y2BADNA integrity scanning protein DisA/0.459
4hxyNDPPlm1/0.459
4rrvATP3-phosphoinositide-dependent protein kinase 12.7.11.10.459
1hdgNADGlyceraldehyde-3-phosphate dehydrogenase/0.458
2ivpATPtRNA N6-adenosine threonylcarbamoyltransferase/0.458
2rkvZBATrichothecene 3-O-acetyltransferase/0.458
3r83Z14Cyclin-dependent kinase 22.7.11.220.458
3sdi3SDProteasome subunit beta type-53.4.25.10.458
3sdi3SDProteasome subunit beta type-63.4.25.10.458
4cqlNADEstradiol 17-beta-dehydrogenase 81.1.1.620.458
4m9aFDAAcyl-CoA dehydrogenase/0.458
1cs4FOKAdenylate cyclase type 2/0.457
1cs4FOKAdenylate cyclase type 5/0.457
1mmaADPMyosin-2 heavy chain/0.457
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.457
2hxl422Serine/threonine-protein kinase Chk12.7.11.10.457
3flwFLWMitogen-activated protein kinase 14/0.457
3wbbNAPMeso-diaminopimelate D-dehydrogenase/0.457
3zk5Z18Cytochrome P450 monooxygenase PikC/0.457
1bvrNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.456
1k7fIAVTryptophan synthase alpha chain/0.456
1t87CAMCamphor 5-monooxygenase1.14.15.10.456
2bxmIMNSerum albumin/0.456
2uzuL20cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.456
3hrfATP3-phosphoinositide-dependent protein kinase 12.7.11.10.456
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.456
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.456
5a3cNADSIR2 family protein/0.456
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.456
1g4tFTPThiamine-phosphate synthase/0.455
1nf7RVPInosine-5'-monophosphate dehydrogenase 2/0.455
2g5cNADPrephenate dehydrogenase/0.455
2woeAR6ADP-ribosyl-[dinitrogen reductase] glycohydrolase3.2.2.240.455
3dogNNNCyclin-dependent kinase 22.7.11.220.455
3il1B5DGlutamate receptor 2/0.455
1mrwK57Gag-Pol polyprotein3.4.23.160.454
1t1sCBQ1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.454
2d2iNAPGlyceraldehyde-3-phosphate dehydrogenase/0.454
2oh02PYcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.454
2zbaZBATrichothecene 3-O-acetyltransferase/0.454
3fwgCAMCamphor 5-monooxygenase1.14.15.10.454
4fswHK6Serine/threonine-protein kinase Chk12.7.11.10.454
4ftt6HKSerine/threonine-protein kinase Chk12.7.11.10.454
4l445FIRibosomal protein S6 kinase beta-12.7.11.10.454
1dgmADNAdenosine kinase2.7.1.200.453
1dz8CAMCamphor 5-monooxygenase1.14.15.10.453
1u3cFADCryptochrome-1/0.453
3a1cACPProbable copper-exporting P-type ATPase A3.6.3.540.453
3c35KAIGlutamate receptor ionotropic, kainate 1/0.453
3gu83GUDeath-associated protein kinase 12.7.11.10.453
4xcvNDPProbable hydroxyacid dehydrogenase protein/0.453
1llqNADNAD-dependent malic enzyme, mitochondrial1.1.1.380.452
2cd8PXICytochrome P450 monooxygenase PikC/0.452
2cdz23DSerine/threonine-protein kinase PAK 42.7.11.10.452
2ch6ADPN-acetyl-D-glucosamine kinase2.7.1.590.452
2rhrEMOPutative ketoacyl reductase1.3.10.452
2znoS44Peroxisome proliferator-activated receptor gamma/0.452
3dheANDEstradiol 17-beta-dehydrogenase 11.1.1.620.452
3orzBI43-phosphoinositide-dependent protein kinase 12.7.11.10.452
3otuBI43-phosphoinositide-dependent protein kinase 12.7.11.10.452
3qyw6PBMitogen-activated protein kinase 12.7.11.240.452
4a6nFADTetX family tetracycline inactivation enzyme/0.452
4jqlVJ6Heat shock protein HSP 90-alpha/0.452
4jv81M1Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.452
4l3l5FIRibosomal protein S6 kinase beta-12.7.11.10.452
4l4eCAMCamphor 5-monooxygenase1.14.15.10.452
5cpbNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.452
1msnJE2Gag-Pol polyprotein3.4.23.160.451
1u3dFADCryptochrome-1/0.451
1xddAAYIntegrin alpha-L/0.451
2brnDF1Serine/threonine-protein kinase Chk12.7.11.10.451
3coz54HPantothenate synthetase6.3.2.10.451
3iobA4DPantothenate synthetase6.3.2.10.451
3u9eCOALmo1369 protein/0.451
4gu610NFocal adhesion kinase 12.7.10.20.451
4oznATPAmmonium transporter/0.451
4rqkATP3-phosphoinositide-dependent protein kinase 12.7.11.10.451
2exlGDMEndoplasmin/0.450
2gejGDDPhosphatidyl-myo-inositol mannosyltransferase2.4.1.570.450
2plmSIB5-methylthioadenosine/S-adenosylhomocysteine deaminase3.5.4.280.450
2qocANPEphrin type-A receptor 32.7.10.10.450
2wtcVGMSerine/threonine-protein kinase Chk22.7.11.10.450
2ym44YMSerine/threonine-protein kinase Chk12.7.11.10.450
3sc13S13-phosphoinositide-dependent protein kinase 12.7.11.10.450
4ks8B49Serine/threonine-protein kinase PAK 62.7.11.10.450
4l23X6KPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform/0.450
4r2mANPUniversal stress protein F/0.450
1bv9XV6Gag-Pol polyprotein3.4.23.160.449
4l4xNDPAmphI/0.449
4uymVOR14-alpha sterol demethylase Cyp51B/0.449
5br4NADLactaldehyde reductase1.1.1.770.449
1e3eNAIAlcohol dehydrogenase 41.1.1.10.448
1j21ATPArgininosuccinate synthase/0.448
1nzfUPGDNA beta-glucosyltransferase/0.448
2avvMK1Gag-Pol polyprotein3.4.23.160.448
2itnANPEpidermal growth factor receptor2.7.10.10.448
2xckMH43-phosphoinositide-dependent protein kinase 12.7.11.10.448
3nd1SAHPrecorrin-6A synthase (Deacetylating)/0.448
1g63FMNEpidermin decarboxylase4.1.10.447
3aidARQGag-Pol polyprotein3.4.23.160.447
3u78E67Lysine-specific demethylase 7A1.14.110.447
3w0pADPHygromycin-B 4-O-kinase2.7.1.1630.447
4qxr1YEStimulator of interferon genes protein/0.447
4wkqIREEpidermal growth factor receptor2.7.10.10.447
1gthFADDihydropyrimidine dehydrogenase [NADP(+)]1.3.1.20.446
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.446
2f7e2EAcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.446
2qbmCAMCamphor 5-monooxygenase1.14.15.10.446
2qhcAB1Protease/0.446
3h3cP1EProtein-tyrosine kinase 2-beta2.7.10.20.446
3ivgFG5Pantothenate synthetase6.3.2.10.446
3lf0ATPNitrogen regulatory protein P-II/0.446
3pnlADPPEP-dependent dihydroxyacetone kinase, ADP-binding subunit DhaL2.70.446
3uzwNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.446
3zxsFADDeoxyribodipyrimidine photolyase-related protein/0.446
4kqwNAPKetol-acid reductoisomerase (NADP(+))/0.446
4z875GPInosine-5'-monophosphate dehydrogenase/0.446
1i59ADPChemotaxis protein CheA2.7.13.30.445
2b56UTPRNA editing complex protein MP57/0.445
2brbPFQSerine/threonine-protein kinase Chk12.7.11.10.445
2brmDFZSerine/threonine-protein kinase Chk12.7.11.10.445
2gjlFMNNitronate monooxygenase1.13.12.160.445
2hy0306Serine/threonine-protein kinase Chk12.7.11.10.445
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.445
2ou5FMNPyridoxamine 5'-phosphate oxidase-related FMN-binding protein/0.445
3ojlNADCap5O/0.445
3q2jCKIAminoglycoside 3'-phosphotransferase2.7.1.950.445
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.445
4e5yNDPGDP-L-fucose synthase1.1.1.2710.445
4kgmATPUncharacterized protein/0.445
4l4dCAMCamphor 5-monooxygenase1.14.15.10.445
4xiwAZMCarbonic anhydrase, alpha type/0.445
4xx9ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.445
1dz6CAMCamphor 5-monooxygenase1.14.15.10.444
1h1wATP3-phosphoinositide-dependent protein kinase 12.7.11.10.444
1tehNADAlcohol dehydrogenase class-31.1.1.10.444
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.444
2q29ACOOxalyl-CoA decarboxylase4.1.1.80.444
2qenADPWalker-Type ATPase/0.444
2vz6FEFCalcium/calmodulin-dependent protein kinase type II subunit alpha2.7.11.170.444
3inmNDPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.444
3nwxKVSGag-Pol polyprotein3.4.23.160.444
3nxxNDPDihydrofolate reductase1.5.1.30.444
3umw596Serine/threonine-protein kinase pim-12.7.11.10.444
4b7sQLECytochrome P450 monooxygenase PikC/0.444
4bkz1WSMaternal embryonic leucine zipper kinase2.7.11.10.444
4kkyCAMCamphor 5-monooxygenase1.14.15.10.444
4kwhNAPReductase homolog/0.444
5itzLOCTubulin beta-2B chain/0.444
1bwb146Gag-Pol polyprotein3.4.23.160.443
1cjkFOKAdenylate cyclase type 2/0.443
1cjkFOKAdenylate cyclase type 5/0.443
1cx4CMPcAMP-dependent protein kinase type II-beta regulatory subunit/0.443
1ep3FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit1.3.1.140.443
1ia1NDPDihydrofolate reductase1.5.1.30.443
1n2gAPCPantothenate synthetase6.3.2.10.443
1r2jFADFkbI/0.443
1rbmKT5Trifunctional purine biosynthetic protein adenosine-32.1.2.20.443
1uu8BI13-phosphoinositide-dependent protein kinase 12.7.11.10.443
1zarADPRIO-type serine/threonine-protein kinase Rio22.7.11.10.443
2acxANPG protein-coupled receptor kinase 62.7.11.160.443
2br1PFPSerine/threonine-protein kinase Chk12.7.11.10.443
2ca0PXICytochrome P450 monooxygenase PikC/0.443
2cig1DGDihydrofolate reductase1.5.1.30.443
2pwcG3GGag-Pol polyprotein3.4.23.160.443
2qboCAMCamphor 5-monooxygenase1.14.15.10.443
3bgbLJGGag-Pol polyprotein3.4.23.160.443
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.443
3qp0NI8Gag-Pol polyprotein3.4.23.160.443
3tkiS25Serine/threonine-protein kinase Chk12.7.11.10.443
3umvFADDeoxyribodipyrimidine photo-lyase4.1.99.30.443
4ewn0VRImidazole glycerol phosphate synthase subunit HisF4.1.30.443
4gk3L87Ephrin type-A receptor 32.7.10.10.443
4mk029XBeta-adrenergic receptor kinase 12.7.11.150.443
5f8eSAHPossible transcriptional regulatory protein/0.443
1bygSTUTyrosine-protein kinase CSK/0.442
1ej2NADNicotinamide-nucleotide adenylyltransferase2.7.7.10.442
1hfqMOTDihydrofolate reductase1.5.1.30.442
1k6cMK1Gag-Pol polyprotein3.4.23.160.442
1msmJE2Gag-Pol polyprotein3.4.23.160.442
3d8vUD1Bifunctional protein GlmU/0.442
3ibqATPPyridoxal kinase/0.442
4d9fDCSD-cysteine desulfhydrase/0.442
4ei7GDPPlasmid replication protein RepX/0.442
4gpbGFPGlycogen phosphorylase, muscle form2.4.1.10.442
4i6aHMG3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.880.442
4n6hEJ4Delta-type opioid receptor/0.442
4xgxADPFAD:protein FMN transferase/0.442
5cp4CAMCamphor 5-monooxygenase1.14.15.10.442
1gz8MBPCyclin-dependent kinase 22.7.11.220.441
1i5cADPChemotaxis protein CheA2.7.13.30.441
1ix1BB2Peptide deformylase/0.441
1ja0FMNNADPH--cytochrome P450 reductase/0.441
1npvL27Gag-Pol polyprotein3.4.23.160.441
1py5PY1TGF-beta receptor type-12.7.11.300.441
1u28NAPNAD(P) transhydrogenase subunit beta1.6.1.20.441
1yrdCAMCamphor 5-monooxygenase1.14.15.10.441
2b53D23Cyclin-dependent kinase 22.7.11.220.441
2bkkADPAminoglycoside 3'-phosphotransferase2.7.1.950.441
2brgDFYSerine/threonine-protein kinase Chk12.7.11.10.441
2gr0FADFerredoxin reductase/0.441
2w2lNADD-mandelate dehydrogenase/0.441
3c0i3AMPeripheral plasma membrane protein CASK2.7.11.10.441
3d84NDPDihydrofolate reductase1.5.1.30.441
3h06VBPGlutamate receptor 2/0.441
3k3bADPKinesin-like protein KIF11/0.441
3n7uNADFormate dehydrogenase, chloroplastic/mitochondrial/0.441
4aqkADPInositol-pentakisphosphate 2-kinase2.7.1.1580.441
4wh3ATPN-acetylhexosamine 1-kinase2.7.1.1620.441
1cf2NAPGlyceraldehyde-3-phosphate dehydrogenase/0.440
1lquNDPNADPH-ferredoxin reductase FprA1.18.1.20.440
1n77ATPGlutamate--tRNA ligase6.1.1.170.440
1nvqUCNSerine/threonine-protein kinase Chk12.7.11.10.440
1sguMK1Gag-Pol polyprotein3.4.23.160.440
4gh2HK0Serine/threonine-protein kinase Chk12.7.11.10.440
4px9ADPATP-dependent RNA helicase DDX3X3.6.4.130.440