Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
2r9kSGIBeta-galactoside-specific lectin 1

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity
Align
2r9kSGIBeta-galactoside-specific lectin 1/1.000
3dxmN24Actin-related protein 3/0.492
4tuvCPZCytochrome P450 1191.140.492
1jpaANPEphrin type-B receptor 22.7.10.10.485
3icsADPCoenzyme A disulfide reductase/0.482
4q71FADBifunctional protein PutA/0.481
2ftoCB3Thymidylate synthase/0.480
3csdEMOPutative ketoacyl reductase1.3.10.478
4knzCB3Thymidylate synthase/0.476
1k6tXN1Gag-Pol polyprotein3.4.23.160.475
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.475
2qo9ANPEphrin type-A receptor 32.7.10.10.475
1nytNAPShikimate dehydrogenase (NADP(+))/0.472
2gcgNDPGlyoxylate reductase/hydroxypyruvate reductase1.1.1.790.472
2ztlNADD(-)-3-hydroxybutyrate dehydrogenase/0.472
3umpATPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.472
2cgpCMPcAMP-activated global transcriptional regulator CRP/0.471
3b6zCO7Enoyl reductase LovC10.471
3uxyNADShort-chain dehydrogenase/reductase SDR/0.469
1xq6NAPUncharacterized protein At5g02240/0.468
1rx4DDFDihydrofolate reductase1.5.1.30.467
2a1nCAMCamphor 5-monooxygenase1.14.15.10.467
2znq401Peroxisome proliferator-activated receptor delta/0.467
3cifNADGlyceraldehyde-3-phosphate dehydrogenase/0.467
4a6cQG9Gag-Pol polyprotein3.4.23.160.466
4gevCB3Thymidylate synthase/0.465
3biy01KHistone acetyltransferase p300/0.464
4dh60KNBeta-secretase 13.4.23.460.464
4l7f1V5Mitogen-activated protein kinase 82.7.11.240.464
4yduADPtRNA N6-adenosine threonylcarbamoyltransferase/0.464
2wdzNADGalactitol dehydrogenase/0.463
3r9uFADThioredoxin reductase/0.463
1v59FADDihydrolipoyl dehydrogenase, mitochondrial1.8.1.40.462
2y05NAPProstaglandin reductase 1/0.462
4l4xNDPAmphI/0.462
2ftoTMPThymidylate synthase/0.461
2q2vNADBeta-D-hydroxybutyrate dehydrogenase/0.461
3adaNADSubunit alpha of sarocosine oxidase/0.461
3uleC69Actin-related protein 3/0.461
3vdqNAD3-hydroxybutyrate dehydrogenase/0.461
4fqsLYAThymidylate synthase ThyA/0.461
1a59COA2-methylcitrate synthase/0.460
1x7hNDPPutative ketoacyl reductase1.3.10.460
3drcMTXDihydrofolate reductase1.5.1.30.460
3t4nADP5'-AMP-activated protein kinase subunit gamma/0.460
4e37NDPCatalase1.11.1.60.460
4fj0NAP17beta-hydroxysteroid dehydrogenase/0.459
4n3cUD1UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit/0.459
1rszDIHPurine nucleoside phosphorylase2.4.2.10.458
1t85CAMCamphor 5-monooxygenase1.14.15.10.458
2q4bNAPUncharacterized protein At5g02240/0.458
2r7b2533-phosphoinositide-dependent protein kinase 12.7.11.10.458
2ywlFADThioredoxin reductase related protein/0.458
3gbk2PQPeroxisome proliferator-activated receptor gamma/0.458
4ez8DHFThymidylate synthase2.1.1.450.458
4n9iPCGCatabolite expression activator/0.458
4yryFADGlutamate synthase, beta subunit/0.458
1qbgFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.457
2b4qNAPRhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase1.1.1.1000.457
3awhFMNFMN-binding protein/0.457
3etgNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.457
3f8kCOAUncharacterized protein/0.457
3iahNAPPutative oxoacyl-(Acyl carrier protein) reductase/0.457
3qt62P0Mevalonate diphosphate decarboxylase/0.457
4rf2NAPNADPH dependent R-specific alcohol dehydrogenase/0.457
5cvcPLPSerine racemase/0.457
1r6g442Thyroid hormone receptor beta/0.456
3vt3VDXVitamin D3 receptor/0.456
3vweCOAAlpha-tubulin N-acetyltransferase 1/0.456
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.456
1ebyBEBGag-Pol polyprotein3.4.23.160.455
1pr9NAPL-xylulose reductase1.1.1.100.455
1txzAPRProbable ADP-ribose 1''-phosphate phosphatase YML087W3.1.3.840.455
2cduFADNADH oxidase/0.455
3hbbNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.455
3icrFADCoenzyme A disulfide reductase/0.455
3qp0NI8Gag-Pol polyprotein3.4.23.160.455
1dljUGAUDP-glucose 6-dehydrogenase/0.454
1fcbFMNCytochrome b2, mitochondrial1.1.2.30.454
1fwkADPHomoserine kinase2.7.1.390.454
1lolXMPOrotidine 5'-phosphate decarboxylase4.1.1.230.454
1mb9ATPCarboxyethyl-arginine beta-lactam-synthase6.3.3.40.454
1qr6NADNAD-dependent malic enzyme, mitochondrial1.1.1.380.454
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.454
3b70NAPEnoyl reductase LovC10.454
3fpzAHZThiamine thiazole synthase/0.454
3qwbNDPProbable quinone oxidoreductase1.6.5.50.454
4bcrWY1Peroxisome proliferator-activated receptor alpha/0.454
1cscCMCCitrate synthase, mitochondrial2.3.3.10.453
1t0lNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.453
2dteNAIGlucose 1-dehydrogenase related protein/0.453
2i0aMUIProtease/0.453
2ou2ACOHistone acetyltransferase KAT5/0.453
3junAKDPhenazine biosynthesis protein A/B/0.453
4c6uTLG3-oxoacyl-ACP synthase/0.453
4o0rX4ZSerine/threonine-protein kinase PAK 12.7.11.10.453
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.453
5itzLOCTubulin beta-2B chain/0.453
5jscFADPutative acyl-CoA dehydrogenase/0.453
1k6pXN3Gag-Pol polyprotein3.4.23.160.452
1uyrD1LAcetyl-CoA carboxylase/0.452
1vl8NAPOxidoreductase, short chain dehydrogenase/reductase family/0.452
2avvMK1Gag-Pol polyprotein3.4.23.160.452
2jbsFMNp-hydroxyphenylacetate 3-hydroxylase, oxygenase component/0.452
2yy7NADL-threonine dehydrogenase/0.452
2zb3NDPProstaglandin reductase 21.3.1.480.452
3axwTIDCasein kinase II subunit alpha2.7.11.10.452
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.452
3vt45YIVitamin D3 receptor/0.452
3wmxNADNAD dependent epimerase/dehydratase/0.452
3zh8C58Protein kinase C iota type2.7.11.130.452
4abzT1CTetracycline repressor protein class D/0.452
4el5D1MGlycogen phosphorylase, muscle form2.4.1.10.452
5cmsAPRO-acetyl-ADP-ribose deacetylase/0.452
5k7wSAHN6-adenosine-methyltransferase 70 kDa subunit/0.452
1fxsNAPGDP-L-fucose synthase/0.451
1il0CAAHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.451
1rx8NAPDihydrofolate reductase1.5.1.30.451
1u7tNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.451
1ybmNAPUncharacterized protein At5g02240/0.451
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.451
3upkUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.451
3zuyTCHTransporter/0.451
4umxNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.451
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.450
1u3wFXYAlcohol dehydrogenase 1C1.1.1.10.450
1u4dDBQActivated CDC42 kinase 1/0.450
2vbdV10Isopenicillin N synthase1.21.3.10.450
2x6tNAPADP-L-glycero-D-manno-heptose-6-epimerase/0.450
3lctADPALK tyrosine kinase receptor2.7.10.10.450
4geb0LDKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.450
4i02CMPcAMP-activated global transcriptional regulator CRP/0.450
4qmpDKISerine/threonine-protein kinase 242.7.11.10.450
1hf3NADAlcohol dehydrogenase E chain1.1.1.10.449
1lonIMOAdenylosuccinate synthetase isozyme 1/0.449
1t86CAMCamphor 5-monooxygenase1.14.15.10.449
1tduDURThymidylate synthase/0.449
2avsMK1Gag-Pol polyprotein3.4.23.160.449
2c27ACOMycothiol acetyltransferase2.3.1.1890.449
2eklNADD-3-phosphoglycerate dehydrogenase/0.449
2y1oT26UDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.449
3bg7FADPyranose 2-oxidase/0.449
3fwjCAMCamphor 5-monooxygenase1.14.15.10.449
3i59N6SCRP-like cAMP-activated global transcriptional regulator/0.449
3r04UNQSerine/threonine-protein kinase pim-12.7.11.10.449
4bkz1WSMaternal embryonic leucine zipper kinase2.7.11.10.449
4ewn0VRImidazole glycerol phosphate synthase subunit HisF4.1.30.449
1ikgREXD-alanyl-D-alanine carboxypeptidase3.4.16.40.448
1k6cMK1Gag-Pol polyprotein3.4.23.160.448
1lsjNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.448
2c59NADGDP-mannose 3,5-epimerase5.1.3.180.448
2cahNDPCatalase1.11.1.60.448
2nnlNAPDihydroflavonol 4-reductase1.1.1.2190.448
3ruqADPChaperonin/0.448
3stw2TDMethylketone synthase I/0.448
3w8fNAD3-hydroxybutyrate dehydrogenase/0.448
4l8u9AZSerum albumin/0.448
4z64ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.448
1gqtACPRibokinase/0.447
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.447
1p0hACOMycothiol acetyltransferase2.3.1.1890.447
1sguMK1Gag-Pol polyprotein3.4.23.160.447
1t0iFMNNAD(P)H-dependent FMN reductase LOT6/0.447
2i0dMUTProtease/0.447
2rhrEMOPutative ketoacyl reductase1.3.10.447
2yitYITSerine/threonine-protein kinase Chk22.7.11.10.447
2zdt46CMitogen-activated protein kinase 102.7.11.240.447
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.447
3crlANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial2.7.11.20.447
3gggNADPrephenate dehydrogenase/0.447
3ogqAB1Pol polyprotein/0.447
3rj9NADAlcohol dehydrogenase1.1.1.10.447
3sp9IL2Peroxisome proliferator-activated receptor delta/0.447
3stv3HOMethylketone synthase I/0.447
3t2vKKJPeptidoglycan recognition protein 1/0.447
3zu2NAIEnoyl-[acyl-carrier-protein] reductase [NADH]/0.447
1bifAGS6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 42.7.1.1050.446
1dliUDXUDP-glucose 6-dehydrogenase/0.446
1egdFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.446
1mczRMNBenzoylformate decarboxylase4.1.1.70.446
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.446
1tj2FADBifunctional protein PutA1.5.5.20.446
1zeoC01Peroxisome proliferator-activated receptor gamma/0.446
2cibCM6Lanosterol 14-alpha demethylase1.14.13.700.446
2o23NAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.446
2obyNAPQuinone oxidoreductase PIG310.446
2ym5YM5Serine/threonine-protein kinase Chk12.7.11.10.446
3d8bADPFidgetin-like protein 13.6.40.446
3el1DR7Gag-Pol polyprotein3.4.23.160.446
3oibFDAPutative acyl-CoA dehydrogenase/0.446
3rusADPChaperonin/0.446
4az3S35Lysosomal protective protein3.4.16.50.446
4ejmNAPPutative zinc-binding dehydrogenase/0.446
4ftt6HKSerine/threonine-protein kinase Chk12.7.11.10.446
4g2fC07Ephrin type-A receptor 32.7.10.10.446
1dr3TAPDihydrofolate reductase1.5.1.30.445
1efvFADElectron transfer flavoprotein subunit alpha, mitochondrial/0.445
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.445
1menGARTrifunctional purine biosynthetic protein adenosine-32.1.2.20.445
1w48APCNTPase P4/0.445
1wn3HXCPhenylacetic acid degradation protein PaaI/0.445
2gjlFMNNitronate monooxygenase1.13.12.160.445
2j14GNIPeroxisome proliferator-activated receptor delta/0.445
2q9fC3SCholesterol 24-hydroxylase/0.445
2qblCAMCamphor 5-monooxygenase1.14.15.10.445
2qn7HBZGlycogen phosphorylase, muscle form2.4.1.10.445
3ac1KZITyrosine-protein kinase Lck2.7.10.20.445
3bgxMEFThymidylate synthase/0.445
3d7kD7KBenzaldehyde lyase/0.445
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.445
3owaFADAcyl-CoA dehydrogenase/0.445
3r83Z14Cyclin-dependent kinase 22.7.11.220.445
3tqhNDPQuinone oxidoreductase/0.445
3zpuM8BGag-Pol polyprotein3.4.23.160.445
4dc0NDPPutative ketoacyl reductase1.3.10.445
4dfrMTXDihydrofolate reductase1.5.1.30.445
4hle17VPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.445
4i0bCMPcAMP-activated global transcriptional regulator CRP/0.445
4yaiNAIC alpha-dehydrogenase/0.445
1ajvNMBGag-Pol polyprotein3.4.23.160.444
1ju9NADAlcohol dehydrogenase E chain1.1.1.10.444
1m0b0ZQGag-Pol polyprotein3.4.23.160.444
1qy5NECEndoplasmin/0.444
1tj0FADBifunctional protein PutA1.5.5.20.444
1w4zNAPPutative ketoacyl reductase1.3.10.444
2ep7NADGlyceraldehyde-3-phosphate dehydrogenase/0.444
2fwzH71Heat shock protein HSP 90-alpha/0.444
2q3kMUWGag-Pol polyprotein/0.444
2w3bNDPDihydrofolate reductase1.5.1.30.444
3btsNADGalactose/lactose metabolism regulatory protein GAL80/0.444
3mpjFADGlutaryl-CoA dehydrogenase1.3.99.320.444
4fsrHKCSerine/threonine-protein kinase Chk12.7.11.10.444
4ynpSAMHistone-lysine N-methyltransferase ASH1L2.1.1.430.444
1bvrNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.443
1lnyIMOAdenylosuccinate synthetase isozyme 1/0.443
2znnS44Peroxisome proliferator-activated receptor alpha/0.443
3vt8YI3Vitamin D3 receptor/0.443
3zk5Z18Cytochrome P450 monooxygenase PikC/0.443
4jx1CAHCamphor 5-monooxygenase1.14.15.10.443
4ng5PFBAlcohol dehydrogenase E chain1.1.1.10.443
4wq4ATPtRNA N6-adenosine threonylcarbamoyltransferase/0.443
5il2SAHN6-adenosine-methyltransferase 70 kDa subunit/0.443
5jsfNAD17-beta-hydroxysteroid dehydrogenase 141.1.10.443
6ctsCICCitrate synthase, mitochondrial2.3.3.10.443
1dnpMHFDeoxyribodipyrimidine photo-lyase4.1.99.30.442
1gebCAMCamphor 5-monooxygenase1.14.15.10.442
1hpxKNIGag-Pol polyprotein/0.442
1l3iSAHProbable cobalt-precorrin-6B C(15)-methyltransferase (decarboxylating)/0.442
1r2jFADFkbI/0.442
1rkhVD2Vitamin D3 receptor/0.442
1ryiFADGlycine oxidase1.4.3.190.442
2gjnFMNNitronate monooxygenase1.13.12.160.442
2h96893Mitogen-activated protein kinase 82.7.11.240.442
2wufKEM4,5:9,10-diseco-3-hydroxy-5,9,17-trioxoandrosta-1(10),2-diene-4-oate hydrolase3.7.1.170.442
3mvqNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.442
3nmpPYVAbscisic acid receptor PYL2/0.442
3nugNADPyridoxal 4-dehydrogenase1.1.1.1070.442
3t2kFADSulfide-quinone reductase/0.442
3tz3B36Acetyl-CoA carboxylase/0.442
3vn2TLSPeroxisome proliferator-activated receptor gamma/0.442
3vs3VSETyrosine-protein kinase HCK2.7.10.20.442
4fc7NAPPeroxisomal 2,4-dienoyl-CoA reductase1.3.1.340.442
4g9kFADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial1.6.5.90.442
4ienCOAPutative acyl-CoA hydrolase/0.442
4loqSB4Mitogen-activated protein kinase 14/0.442
4nmdFDABifunctional protein PutA/0.442
4u9aSTUInterleukin-1 receptor-associated kinase 42.7.11.10.442
4yagNAIC alpha-dehydrogenase/0.442
1izhQ50Protease/0.441
1me8RVPInosine-5'-monophosphate dehydrogenase/0.441
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441
1ng4FADGlycine oxidase1.4.3.190.441
1njfAGSDNA polymerase III subunit tau2.7.7.70.441
1sn5T3Transthyretin/0.441
1zrzBI1Protein kinase C iota type2.7.11.130.441
2ch6ADPN-acetyl-D-glucosamine kinase2.7.1.590.441
2ejvNADL-threonine 3-dehydrogenase/0.441
2q641UNGag-Pol polyprotein3.4.23.160.441
2ylxFADPhenylacetone monooxygenase1.14.13.920.441
3a25SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase/0.441
3cgeNDPCoenzyme A disulfide reductase/0.441
3ictFADCoenzyme A disulfide reductase/0.441
3kybFADUDP-galactopyranose mutase5.4.99.90.441
4ambDUDPutative glycosyl transferase/0.441
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
4ftkH9KSerine/threonine-protein kinase Chk12.7.11.10.441
4kz01UJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
4l3l5FIRibosomal protein S6 kinase beta-12.7.11.10.441
4lcjNADC-terminal-binding protein 2/0.441
4nh82LCHeat shock protein HSP 90-alpha/0.441
5cdgPFBAlcohol dehydrogenase E chain1.1.1.10.441
1bw9NADPhenylalanine dehydrogenase/0.440
1cydNDPCarbonyl reductase [NADPH] 21.1.1.1840.440
1ebwBEIGag-Pol polyprotein3.4.23.160.440
1gadNADGlyceraldehyde-3-phosphate dehydrogenase A/0.440
1hvyD16Thymidylate synthase2.1.1.450.440
1osvCHCBile acid receptor/0.440
1xe55FEPlasmepsin-23.4.23.390.440
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.440
3bgbLJGGag-Pol polyprotein3.4.23.160.440
3gy0NAPNAD(P)-dependent oxidoreductase/0.440
3h6vNS6Glutamate receptor 2/0.440
3hl7I47Mitogen-activated protein kinase 14/0.440
3i59N6RCRP-like cAMP-activated global transcriptional regulator/0.440
3lqfNADGalactitol dehydrogenase/0.440
3mdvCL6Cholesterol 24-hydroxylase/0.440
3mjeNDPAmphB/0.440
4gapNADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial1.6.5.90.440
4k8aK8AFocal adhesion kinase 12.7.10.20.440
4u9yCOAAlpha-tubulin N-acetyltransferase 1/0.440