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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
4o2bLOCTubulin beta-2B chain

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
4o2bLOCTubulin beta-2B chain/1.000
5eypLOCTubulin beta chain/0.666
5itzLOCTubulin beta-2B chain/0.583
3ut5LOCTubulin beta chain/0.552
3zuyTCHTransporter/0.505
1pmn984Mitogen-activated protein kinase 102.7.11.240.498
3d7kD7KBenzaldehyde lyase/0.485
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.482
3zuxTCHTransporter/0.482
1dhjMTXDihydrofolate reductase1.5.1.30.480
2hwrDRDPeroxisome proliferator-activated receptor gamma/0.478
3wmxNADNAD dependent epimerase/dehydratase/0.477
1h69FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.476
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.476
2qo5CHDFatty acid-binding protein 10-A, liver basic/0.476
1zmdNAIDihydrolipoyl dehydrogenase, mitochondrial1.8.1.40.475
4nh82LCHeat shock protein HSP 90-alpha/0.475
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.474
4ambDUDPutative glycosyl transferase/0.474
2ca0PXICytochrome P450 monooxygenase PikC/0.473
2cx8SAHRibosomal RNA small subunit methyltransferase E/0.473
4ewn0VRImidazole glycerol phosphate synthase subunit HisF4.1.30.473
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.472
2p33J07Mitogen-activated protein kinase 102.7.11.240.471
1jipKTN6-deoxyerythronolide B hydroxylase/0.470
2po7CHDFerrochelatase, mitochondrial4.99.1.10.470
3poz03PEpidermal growth factor receptor2.7.10.10.470
3vt8YI3Vitamin D3 receptor/0.470
1eupASD6-deoxyerythronolide B hydroxylase/0.469
1k6tXN1Gag-Pol polyprotein3.4.23.160.469
1jioDEB6-deoxyerythronolide B hydroxylase/0.468
1k6cMK1Gag-Pol polyprotein3.4.23.160.468
2pobGW4Peroxisome proliferator-activated receptor gamma/0.468
3w0nANPHygromycin-B 4-O-kinase2.7.1.1630.468
3vt9YI4Vitamin D3 receptor/0.467
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.466
3w0sANPHygromycin-B 4-O-kinase2.7.1.1630.466
4awiAQ2Mitogen-activated protein kinase 82.7.11.240.466
1bygSTUTyrosine-protein kinase CSK/0.465
1pdhFASp-hydroxybenzoate hydroxylase/0.465
1rdt570Peroxisome proliferator-activated receptor gamma/0.465
2xckMH43-phosphoinositide-dependent protein kinase 12.7.11.10.465
3a1nNADNDP-sugar epimerase/0.465
1q4u4CA4-hydroxybenzoyl-CoA thioesterase3.1.2.230.464
2p5uNADUDP-glucose 4-epimerase/0.464
3inxJZCHeat shock protein HSP 90-alpha/0.464
3r5zF42Uncharacterized protein/0.464
4e730NRMitogen-activated protein kinase 82.7.11.240.464
3fl8RARDihydrofolate reductase/0.463
3rm618ZCyclin-dependent kinase 22.7.11.220.463
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.462
3ii43IIDihydrolipoyl dehydrogenase1.8.1.40.462
3jskAHZThiamine thiazole synthase/0.462
4l425FIRibosomal protein S6 kinase beta-12.7.11.10.462
1sn5T3Transthyretin/0.461
4jjiNADAlcohol dehydrogenase class-3/0.461
4xx9ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.461
1fm9570Peroxisome proliferator-activated receptor gamma/0.460
2fwzH71Heat shock protein HSP 90-alpha/0.460
3b70NAPEnoyl reductase LovC10.460
3gw9VNILanosterol 14-alpha-demethylase/0.460
3hmm855TGF-beta receptor type-12.7.11.300.460
1gg5FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.459
1pr9NAPL-xylulose reductase1.1.1.100.459
3a783EVVitamin D3 receptor/0.459
3begANPSRSF protein kinase 12.7.11.10.459
3w0c6DSVitamin D3 receptor/0.459
3zk5Z18Cytochrome P450 monooxygenase PikC/0.459
1dxqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.458
1gufNDPEnoyl-[acyl-carrier-protein] reductase 1, mitochondrial1.3.1.100.458
2vn0TDZCytochrome P450 2C8/0.458
3l0lHC3Nuclear receptor ROR-gamma/0.458
4yr9NADL-threonine 3-dehydrogenase, mitochondrial1.1.1.1030.458
1aj8COACitrate synthase/0.457
2hamC33Vitamin D3 receptor/0.457
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.457
3v9v21LPeroxisome proliferator-activated receptor gamma/0.457
4anuEM7Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.457
4y95746Tyrosine-protein kinase/0.457
1llqNADNAD-dependent malic enzyme, mitochondrial1.1.1.380.456
1tw4CHDFatty acid-binding protein, liver/0.456
3bheBZNGag-Pol polyprotein3.4.23.160.456
4d0l093Phosphatidylinositol 4-kinase beta2.7.1.670.456
4q0a4OAVitamin D3 receptor A/0.456
5eaiFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.456
4cd2FOLDihydrofolate reductase1.5.1.30.455
4nb6444Nuclear receptor ROR-gamma/0.455
4nkvAERSteroid 17-alpha-hydroxylase/17,20 lyase/0.455
4nky3QZSteroid 17-alpha-hydroxylase/17,20 lyase/0.455
4xldBRLPeroxisome proliferator-activated receptor gamma/0.455
1kkq471Peroxisome proliferator-activated receptor alpha/0.454
1qbgFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.454
3cv9VDXVitamin D3 dihydroxylase/0.454
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.454
3uagUMAUDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.454
4nxuADPMitochondrial dynamics protein MID51/0.454
1k6pXN3Gag-Pol polyprotein3.4.23.160.453
1rv1IMZE3 ubiquitin-protein ligase Mdm26.3.20.453
1w4zNAPPutative ketoacyl reductase1.3.10.453
2cgw3C3Serine/threonine-protein kinase Chk12.7.11.10.453
2pmdGNPTranslation initiation factor 2 subunit gamma/0.453
2yekEAMBromodomain-containing protein 2/0.453
3adaNADSubunit alpha of sarocosine oxidase/0.453
3g49NAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.453
3le62BZCyclin-dependent kinase 22.7.11.220.453
3oibFDAPutative acyl-CoA dehydrogenase/0.453
3tea4CO4-hydroxybenzoyl-CoA thioesterase3.1.2.230.453
3w0iO11Vitamin D3 receptor/0.453
1kgjFL8Transthyretin/0.452
2vxoXMPGMP synthase [glutamine-hydrolyzing]6.3.5.20.452
2y3sTIRTamL/0.452
3kpzZNEVitamin D3 receptor/0.452
3mvqNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.452
3sayOFTGlycogen synthase kinase-3 beta2.7.11.260.452
3vt65YIVitamin D3 receptor/0.452
4nd2A3DLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.452
4oxyNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.452
4tuvCPZCytochrome P450 1191.140.452
5a3cNADSIR2 family protein/0.452
1uy7PU4Heat shock protein HSP 90-alpha/0.451
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.451
2wotZZGTGF-beta receptor type-12.7.11.300.451
2ykeYKEHeat shock protein HSP 90-alpha/0.451
3bc3OPTCathepsin L13.4.22.150.451
3eljGS7Mitogen-activated protein kinase 82.7.11.240.451
3etgNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.451
3vt5YI2Vitamin D3 receptor/0.451
3zc3NAPFerredoxin--NADP reductase1.18.1.20.451
4ia3BIVVitamin D3 receptor A/0.451
5e8wSTUTGF-beta receptor type-12.7.11.300.451
1dhiMTXDihydrofolate reductase1.5.1.30.450
1dnaCB3Thymidylate synthase/0.450
2ath3EAPeroxisome proliferator-activated receptor gamma/0.450
2c6hPXICytochrome P450 monooxygenase PikC/0.450
3t2kFADSulfide-quinone reductase/0.450
3zze6XPHepatocyte growth factor receptor2.7.10.10.450
4awq592Heat shock protein HSP 90-alpha/0.450
4gb90WRPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.450
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.450
4hfmNAP2-alkenal reductase (NADP(+)-dependent)/0.450
4ri1ACOUDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine N-acetyltransferase2.3.1.2020.450
1blzACVIsopenicillin N synthase1.21.3.10.449
1xkkFMMEpidermal growth factor receptor2.7.10.10.449
2bbqPFGThymidylate synthase/0.449
2qo4CHDFatty acid-binding protein 10-A, liver basic/0.449
2vcmM11Isopenicillin N synthase1.21.3.10.449
2wsbNADGalactitol dehydrogenase/0.449
3r1sX73Cyclin-dependent kinase 22.7.11.220.449
4aw3MYVMycinamicin IV hydroxylase/epoxidase/0.449
4c4jX21Dual specificity protein kinase TTK2.7.12.10.449
4ejmNAPPutative zinc-binding dehydrogenase/0.449
4l9kEHFSerum albumin/0.449
1c70L75Protease/0.448
1dxoFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.448
1ie4T44Transthyretin/0.448
2g5cNADPrephenate dehydrogenase/0.448
2iyaZIOOleandomycin glycosyltransferase/0.448
2pr2DG1Enoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.448
3ibdCPZCytochrome P450 2B61.14.130.448
3inwJZBHeat shock protein HSP 90-alpha/0.448
3w32W32Epidermal growth factor receptor2.7.10.10.448
4fhh0U3Vitamin D3 receptor A/0.448
4ia1BIVVitamin D3 receptor A/0.448
4r21STRCytochrome P450 family 17 polypeptide 2/0.448
1i7iAZ2Peroxisome proliferator-activated receptor gamma/0.447
1ie8KH1Vitamin D3 receptor/0.447
1r2jFADFkbI/0.447
1u54ACPActivated CDC42 kinase 1/0.447
1w2xRCPAcetyl-CoA carboxylase/0.447
2b378PSEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.447
2c7xNRBCytochrome P450 monooxygenase PikC/0.447
2om9AJAPeroxisome proliferator-activated receptor gamma/0.447
2wdzNADGalactitol dehydrogenase/0.447
3kpkFADSulfide-quinone reductase/0.447
3qdd94MHeat shock protein HSP 90-alpha/0.447
3w0aDS5Vitamin D3 receptor/0.447
4b7dQLECytochrome P450 monooxygenase PikC/0.447
5bsgNAPPyrroline-5-carboxylate reductase/0.447
1di8DTQCyclin-dependent kinase 22.7.11.220.446
1e3eNAIAlcohol dehydrogenase 41.1.1.10.446
1fm6BRLPeroxisome proliferator-activated receptor gamma/0.446
1k7l544Peroxisome proliferator-activated receptor alpha/0.446
1mjbACOHistone acetyltransferase ESA1/0.446
1zhwHC2Oxysterol-binding protein homolog 4/0.446
2bdf24AProto-oncogene tyrosine-protein kinase Src2.7.10.20.446
2eq7NADDihydrolipoyl dehydrogenase/0.446
2givACOHistone acetyltransferase KAT8/0.446
2jkoBIJFocal adhesion kinase 12.7.10.20.446
2pvnP63Casein kinase II subunit alpha2.7.11.10.446
2y3rTIRTamL/0.446
3ft8MOJHeat shock protein HSP 90-alpha/0.446
3gobHXXDdmC/0.446
3hrfATP3-phosphoinositide-dependent protein kinase 12.7.11.10.446
3inmNDPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.446
3mdvCL6Cholesterol 24-hydroxylase/0.446
3nwxKVSGag-Pol polyprotein3.4.23.160.446
3qtzX42Cyclin-dependent kinase 22.7.11.220.446
4bf2STUMitogen-activated protein kinase kinase kinase 52.7.11.250.446
4biiPYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.446
4kbk1QGCasein kinase I isoform delta2.7.11.10.446
1fwkADPHomoserine kinase2.7.1.390.445
1psa0ZLPepsin A3.4.23.10.445
1rkhVD2Vitamin D3 receptor/0.445
1uykPUXHeat shock protein HSP 90-alpha/0.445
2wufKEM4,5:9,10-diseco-3-hydroxy-5,9,17-trioxoandrosta-1(10),2-diene-4-oate hydrolase3.7.1.170.445
3d1xROCGag-Pol polyprotein3.4.23.160.445
3lu7IPXSerum albumin/0.445
3mnrSD1Heat shock protein HSP 90-alpha/0.445
3njoP2MAbscisic acid receptor PYR1/0.445
3nwq2NCGag-Pol polyprotein3.4.23.160.445
3qk0QK0Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.445
3tqhNDPQuinone oxidoreductase/0.445
4b7xNAPProbable oxidoreductase/0.445
4dfrMTXDihydrofolate reductase1.5.1.30.445
4efuEFUHeat shock protein HSP 90-alpha/0.445
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.445
4oj4DIFPeroxisome proliferator-activated receptor gamma/0.445
1aq1STUCyclin-dependent kinase 22.7.11.220.444
1gpdNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.444
1ppjSMACytochrome b/0.444
1s19MC9Vitamin D3 receptor/0.444
1txiTX5Vitamin D3 receptor/0.444
1y0s331Peroxisome proliferator-activated receptor delta/0.444
1zgyBRLPeroxisome proliferator-activated receptor gamma/0.444
2c27ACOMycothiol acetyltransferase2.3.1.1890.444
2f1kNAPPrephenate dehydrogenase/0.444
2q9fC3SCholesterol 24-hydroxylase/0.444
2y1oT26UDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.444
3i59N6SCRP-like cAMP-activated global transcriptional regulator/0.444
3jw3TOPDihydrofolate reductase/0.444
3jynNDPQuinone oxidoreductase/0.444
3vt7VDXVitamin D3 receptor/0.444
4b7sQLECytochrome P450 monooxygenase PikC/0.444
4bl1ANPMaternal embryonic leucine zipper kinase2.7.11.10.444
4g7gVFVLanosterol 14-alpha-demethylase/0.444
4is3NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 21.17.98.10.444
4o71CPBBromodomain-containing protein 4/0.444
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.444
1bwsNDPGDP-L-fucose synthase/0.443
1e6wNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.443
1h74ADPHomoserine kinase2.7.1.390.443
1qorNDPQuinone oxidoreductase 1/0.443
1uu9BI33-phosphoinositide-dependent protein kinase 12.7.11.10.443
1x7hNDPPutative ketoacyl reductase1.3.10.443
1zmcNADDihydrolipoyl dehydrogenase, mitochondrial1.8.1.40.443
2hw2RFPRifampin ADP-ribosyl transferase/0.443
2jn3JN3Fatty acid-binding protein, liver/0.443
2znpK55Peroxisome proliferator-activated receptor delta/0.443
3gggNADPrephenate dehydrogenase/0.443
3gqvNAPEnoyl reductase LovC10.443
3k4nFADPyranose 2-oxidase/0.443
3p99LNPLanosterol 14-alpha-demethylase/0.443
3tk3CPZCytochrome P450 2B41.14.14.10.443
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
4cdmFADDeoxyribodipyrimidine photolyase/0.443
4uyf73BBromodomain-containing protein 2/0.443
5ifyUMPGlucose-1-phosphate thymidylyltransferase/0.443
1bw9NADPhenylalanine dehydrogenase/0.442
1sn0T44Transthyretin/0.442
2hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.442
2hy81STSerine/threonine-protein kinase PAK 12.7.11.10.442
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.442
2iw94SPCyclin-dependent kinase 22.7.11.220.442
2izrBRKCasein kinase I isoform gamma-32.7.11.10.442
2q4wFADCytokinin dehydrogenase 71.5.99.120.442
2ykiYKIHeat shock protein HSP 90-alpha/0.442
3anlNDP1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.442
3be9P04Casein kinase II subunit alpha2.7.11.10.442
3czr3CZCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.442
3gbk2PQPeroxisome proliferator-activated receptor gamma/0.442
3oquA8SAbscisic acid receptor PYL9/0.442
4fkv61KCyclin-dependent kinase 22.7.11.220.442
5a3bAPRSIR2 family protein/0.442
1oiuN76Cyclin-dependent kinase 22.7.11.220.441
1tz8DESTransthyretin/0.441
2brmDFZSerine/threonine-protein kinase Chk12.7.11.10.441
2gcgNDPGlyoxylate reductase/hydroxypyruvate reductase1.1.1.790.441
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.441
2o4rVD5Vitamin D3 receptor/0.441
2w05FRTCyclin-dependent kinase 22.7.11.220.441
3a99ANPSerine/threonine-protein kinase pim-12.7.11.10.441
3ml8ML8Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
3ruhNADUDP-N-acetylglucosamine 4-epimerase/0.441
3t2yFADSulfide-quinone reductase/0.441
3vrwYS5Vitamin D3 receptor/0.441
3w0yDS4Vitamin D3 receptor/0.441
4bb6HD1Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.441
4h50NAPBiphenyl dioxygenase ferredoxin reductase subunit/0.441
4kl9NDPDihydrofolate reductase1.5.1.30.441
4l9q9TPSerum albumin/0.441
4nd4NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.441
1k74544Peroxisome proliferator-activated receptor gamma/0.440
1zthADPRIO-type serine/threonine-protein kinase Rio12.7.11.10.440
2a4zBYMPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.440
2f4bEHAPeroxisome proliferator-activated receptor gamma/0.440
2vkeTACTetracycline repressor protein class D/0.440
2vnaNAPProstaglandin reductase 21.3.1.480.440
2w06FRVCyclin-dependent kinase 22.7.11.220.440
2zb3NDPProstaglandin reductase 21.3.1.480.440
2zbaZBATrichothecene 3-O-acetyltransferase/0.440
3a4vNADNDP-sugar epimerase/0.440
3kb1ADPIron-sulfur cluster carrier protein/0.440
3opdHIEHeat shock protein 83/0.440
3vt45YIVitamin D3 receptor/0.440
3w5rLOAVitamin D3 receptor/0.440
4a322CDGlycylpeptide N-tetradecanoyltransferase/0.440
4awp99AHeat shock protein HSP 90-alpha/0.440
4cax646Glycylpeptide N-tetradecanoyltransferase2.3.1.970.440
4fko20KCyclin-dependent kinase 22.7.11.220.440
4ipw1G7Mycocyclosin synthase1.14.21.90.440
4jia1K3Tyrosine-protein kinase JAK2/0.440
5ag7MYAGlycylpeptide N-tetradecanoyltransferase/0.440
5c88COAN-alpha-acetyltransferase/0.440
3pwhZMAAdenosine receptor A2a/0.440