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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
3sw1FMNSensory box protein

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3sw1FMNSensory box protein/1.000
5j4eFMNSensory box protein/0.598
5j3wFMNSensory box protein/0.585
1n9nFMNPutative blue light receptor/0.567
4hiaFMNLOV protein/0.567
2z6dFMNPhototropin-22.7.11.10.550
3is2FADVivid PAS protein VVD/0.542
4r38RBFBlue-light-activated histidine kinase 22.7.13.30.538
4eetFMNPhototropin-22.7.11.10.531
2z6cFMNPhototropin-12.7.11.10.528
4hj6FMNLOV protein/0.528
4eesFMNPhototropin-22.7.11.10.524
3t50FMNBlue-light-activated histidine kinase2.7.13.30.522
4hj4FMNLOV protein/0.519
2pdtFADVivid PAS protein VVD/0.516
2pd7FADVivid PAS protein VVD/0.514
2pd8FADVivid PAS protein VVD/0.509
4kukRBFPutative blue-light photoreceptor/0.508
4eepFMNPhototropin-22.7.11.10.507
4wujFMNGlycoside hydrolase family 15, cellulose signaling associated protein envoy/0.505
2pr5FMNBlue-light photoreceptor/0.504
5dkkFMNPredicted protein/0.502
4kuoRBFPutative blue-light photoreceptor/0.501
1n9lFMNPutative blue light receptor/0.500
5djtFMNNPH1-2/0.496
4hj3FMNLOV protein/0.492
3nbvANPKetohexokinase/0.489
4eeuFMNPhototropin-22.7.11.10.488
3hjiFADVivid PAS protein VVD/0.485
2q61SF1Peroxisome proliferator-activated receptor gamma/0.483
4a4vYFDPeroxisome proliferator-activated receptor gamma/0.481
3d72FADVivid PAS protein VVD/0.480
3rm618ZCyclin-dependent kinase 22.7.11.220.480
1i7iAZ2Peroxisome proliferator-activated receptor gamma/0.479
3ue6FMNAureochrome1/0.478
2i5bADPPyridoxine kinase/0.477
3p7nFMNLight-activated DNA-binding protein EL222/0.476
3inmNDPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.475
1i3mUD1UDP-glucose 4-epimerase/0.474
3hjkFADVivid PAS protein VVD/0.474
3umvFADDeoxyribodipyrimidine photo-lyase4.1.99.30.474
2p4yC03Peroxisome proliferator-activated receptor gamma/0.473
4hnbFMNLOV protein/0.473
5efwFMNNPH1-1/0.473
2gtk208Peroxisome proliferator-activated receptor gamma/0.472
2nnlNAPDihydroflavonol 4-reductase1.1.1.2190.472
3d8vUD1Bifunctional protein GlmU/0.472
1g28FMNPHY3/0.470
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.470
3e8nVRADual specificity mitogen-activated protein kinase kinase 12.7.12.20.470
2hy0306Serine/threonine-protein kinase Chk12.7.11.10.469
1ivq0PXGag-Pol polyprotein/0.466
1qpjSTUTyrosine-protein kinase Lck2.7.10.20.465
3iw1ASDSteroid C26-monooxygenase1.14.13.1410.464
4rpgFADUDP-galactopyranose mutase5.4.99.90.464
4hhdFMNPhototropin-12.7.11.10.463
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.462
2ycrHCWSerine/threonine-protein kinase Chk22.7.11.10.462
5cnoANPEpidermal growth factor receptor2.7.10.10.462
5djuFMNNPH1-2/0.462
1ot7CHCBile acid receptor/0.461
1s60COAAminoglycoside N(6')-acetyltransferase type 1/0.461
2qa2FADPolyketide oxygenase CabE/0.461
3a4oSTUTyrosine-protein kinase Lyn2.7.10.20.461
4ji91M3Tyrosine-protein kinase JAK2/0.461
2f4bEHAPeroxisome proliferator-activated receptor gamma/0.459
2ifaFMNUncharacterized protein/0.459
4xj3GTPCyclic GMP-AMP synthase/0.459
2cig1DGDihydrofolate reductase1.5.1.30.458
3qaaG04Gag-Pol polyprotein3.4.23.160.458
4eerFMNPhototropin-22.7.11.10.458
2q29ACOOxalyl-CoA decarboxylase4.1.1.80.457
4f9fGDPPutative glycosyltransferase/0.457
3c0g3AMPeripheral plasma membrane protein CASK2.7.11.10.456
3gfbNADL-threonine 3-dehydrogenase/0.456
4nmdFDABifunctional protein PutA/0.456
4qecNAPElxO/0.456
4rqvATP3-phosphoinositide-dependent protein kinase 12.7.11.10.456
1i3nUD1UDP-glucose 4-epimerase/0.455
1ybmNAPUncharacterized protein At5g02240/0.455
2znoS44Peroxisome proliferator-activated receptor gamma/0.455
3el4ROCGag-Pol polyprotein3.4.23.160.455
1m0b0ZQGag-Pol polyprotein3.4.23.160.454
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.454
4i6aHMG3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.880.454
4kzoNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.454
1egeFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.453
1g1aNADdTDP-glucose 4,6-dehydratase/0.453
1hzjUD1UDP-glucose 4-epimerase/0.453
2qak1UNGag-Pol polyprotein3.4.23.160.453
2qhyMZ1Gag-Pol polyprotein/0.453
3fhxPLPPyridoxal kinase2.7.1.350.453
4bcmT7ZCyclin-dependent kinase 22.7.11.220.453
4yswFADXanthine dehydrogenase/oxidase/0.453
2b7aIZATyrosine-protein kinase JAK2/0.452
2j9mPY8Cyclin-dependent kinase 22.7.11.220.452
2q5g1FAPeroxisome proliferator-activated receptor delta/0.452
3qiyQI1Botulinum neurotoxin type A3.4.24.690.452
3wfjNAD2-dehydropantoate 2-reductase/0.452
4ftiH7KSerine/threonine-protein kinase Chk12.7.11.10.452
4fv3EK6Mitogen-activated protein kinase 12.7.11.240.452
4h8nNDPNADPH-dependent conjugated polyketone reductase C2/0.452
4prxADPDNA gyrase subunit B/0.452
4xumIMNPeroxisome proliferator-activated receptor gamma/0.452
2f7e2EAcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.451
2v1aFMNNPH1-1/0.451
2xckMH43-phosphoinositide-dependent protein kinase 12.7.11.10.451
2ycqUPXSerine/threonine-protein kinase Chk22.7.11.10.451
3etdNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.451
3f3sNADLambda-crystallin homolog/0.451
3r2b05BMAP kinase-activated protein kinase 22.7.11.10.451
3uwqU5POrotidine 5'-phosphate decarboxylase/0.451
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.451
4eutBX7Serine/threonine-protein kinase TBK12.7.11.10.451
4fr4STUSerine/threonine-protein kinase 32A2.7.11.10.451
4w9wYDJBMP-2-inducible protein kinase2.7.11.10.451
1bwsNDPGDP-L-fucose synthase/0.450
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.450
2ft9CHDFatty acid-binding protein 2, liver/0.450
3qa2XNAKetohexokinase/0.450
3qwfNAP17beta-hydroxysteroid dehydrogenase/0.450
1bwb146Gag-Pol polyprotein3.4.23.160.449
1pnvTYDdTDP-epi-vancosaminyltransferase2.4.1.3110.449
1zrzBI1Protein kinase C iota type2.7.11.130.449
2xvv9DNSerum albumin/0.449
3cgfJNFMitogen-activated protein kinase 102.7.11.240.449
3jzdNADMaleylacetate reductase/0.449
3t99ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2/0.449
3vspEK8Peroxisome proliferator-activated receptor gamma/0.449
1osvCHCBile acid receptor/0.448
2j7t274Serine/threonine-protein kinase 102.7.11.10.448
2ql6ADPNicotinamide riboside kinase 1/0.448
2w0jZATSerine/threonine-protein kinase Chk22.7.11.10.448
3dogNNNCyclin-dependent kinase 22.7.11.220.448
3tqhNDPQuinone oxidoreductase/0.448
4hle17VPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.448
4l7sG7KTyrosine-protein kinase ITK/TSK2.7.10.20.448
1k2c0Q4Gag-Pol polyprotein3.4.23.160.447
1kf6FADFumarate reductase flavoprotein subunit1.3.5.40.447
2e16SAHDiphthine synthase/0.447
2oapANPType II secretion system protein (GspE-2)/0.447
3mdmFJZCholesterol 24-hydroxylase/0.447
4bkz1WSMaternal embryonic leucine zipper kinase2.7.11.10.447
4trnNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.447
1tj2FADBifunctional protein PutA1.5.5.20.446
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.446
2hxl422Serine/threonine-protein kinase Chk12.7.11.10.446
2q59240Peroxisome proliferator-activated receptor gamma/0.446
3gy0NAPNAD(P)-dependent oxidoreductase/0.446
3ijoB4DGlutamate receptor 2/0.446
3kkvB99cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.446
4fv7E94Mitogen-activated protein kinase 12.7.11.240.446
4oa9ANPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.446
2bu2ATP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial2.7.11.20.445
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.445
2pyn1UNGag-Pol polyprotein3.4.23.160.445
2q631UNGag-Pol polyprotein3.4.23.160.445
2qs3UBEGlutamate receptor ionotropic, kainate 1/0.445
2x7hPFNProstaglandin reductase 310.445
3kb1ADPIron-sulfur cluster carrier protein/0.445
3nx4NAPPutative oxidoreductase/0.445
3q92XNBKetohexokinase/0.445
3qqs17CAnthranilate phosphoribosyltransferase/0.445
3t9aANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2/0.445
4lj9ACPChaperone protein ClpB/0.445
4nfsNAJAlcohol dehydrogenase E chain1.1.1.10.445
5cnnANPEpidermal growth factor receptor2.7.10.10.445
5dr6SKEAurora kinase A2.7.11.10.445
1dawANPCasein kinase II subunit alpha2.7.11.10.444
1k6pXN3Gag-Pol polyprotein3.4.23.160.444
2brnDF1Serine/threonine-protein kinase Chk12.7.11.10.444
2cgx3D3Serine/threonine-protein kinase Chk12.7.11.10.444
2ch6ADPN-acetyl-D-glucosamine kinase2.7.1.590.444
2eglSAHDiphthine synthase/0.444
2q641UNGag-Pol polyprotein3.4.23.160.444
2r3kSCQCyclin-dependent kinase 22.7.11.220.444
2zoq5IDMitogen-activated protein kinase 32.7.11.240.444
3orzBI43-phosphoinositide-dependent protein kinase 12.7.11.10.444
4a9rRU5Serine/threonine-protein kinase Chk22.7.11.10.444
4aw0ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.444
4fad0TBPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.444
4fk1FADPutative thioredoxin reductase/0.444
4ftt6HKSerine/threonine-protein kinase Chk12.7.11.10.444
4fuyEK2Mitogen-activated protein kinase 12.7.11.240.444
4up3NDPThioredoxin reductase/0.444
1nyxDRFPeroxisome proliferator-activated receptor gamma/0.443
1tehNADAlcohol dehydrogenase class-31.1.1.10.443
2bbbHH1Gag-Pol polyprotein3.4.23.160.443
2fgjATPAlpha-hemolysin translocation ATP-binding protein HlyB/0.443
2pym1UNGag-Pol polyprotein3.4.23.160.443
2w06FRVCyclin-dependent kinase 22.7.11.220.443
3hyoADPPyridoxal kinase/0.443
4u03GTPCyclic GMP-AMP synthase/0.443
4xd2NAIAlcohol dehydrogenase E chain1.1.1.10.443
4yr9NADL-threonine 3-dehydrogenase, mitochondrial1.1.1.1030.443
4zohFADPutative oxidoreductase FAD-binding subunit/0.443
1bdqIM1Gag-Pol polyprotein3.4.23.160.442
2qd7065Gag-Pol polyprotein3.4.23.160.442
2ww4ADP4-diphosphocytidyl-2-C-methyl-D-erythritol kinase2.7.1.1480.442
2x0rNADMalate dehydrogenase/0.442
2xk9XK9Serine/threonine-protein kinase Chk22.7.11.10.442
2z4sADPChromosomal replication initiator protein DnaA/0.442
3bhiNAPCarbonyl reductase [NADPH] 11.1.1.1840.442
3lzv017Gag-Pol polyprotein3.4.23.160.442
4anuEM7Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
4i8zG08Gag-Pol polyprotein3.4.23.160.442
4oagADPMitochondrial dynamics protein MID51/0.442
4ux9ANPMitogen-activated protein kinase 82.7.11.240.442
1a5uATPPyruvate kinase PKM2.7.1.400.441
1bw9NADPhenylalanine dehydrogenase/0.441
1ot7IU5Bile acid receptor/0.441
1rdt570Peroxisome proliferator-activated receptor gamma/0.441
2e08SAHDiphthine synthase/0.441
3d20017Gag-Pol polyprotein3.4.23.160.441
3em3478Gag-Pol polyprotein3.4.23.160.441
3kddJZQGag-Pol polyprotein3.4.23.160.441
3ntdCOAFAD-dependent pyridine nucleotide-disulphide oxidoreductase/0.441
4aw1ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.441
4c58824Cyclin-G-associated kinase2.7.11.10.441
4f9mFCMPeroxisome proliferator-activated receptor gamma/0.441
4lxhC1EAlpha/beta hydrolase fold/0.441
4ohvANPProtein clpf-1/0.441
1bxkNADdTDP-glucose 4,6-dehydratase 2/0.440
1kvkATPMevalonate kinase2.7.1.360.440
1rbzKT5Trifunctional purine biosynthetic protein adenosine-32.1.2.20.440
1u3cFADCryptochrome-1/0.440
2avm2NCGag-Pol polyprotein3.4.23.160.440
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.440
2mwgFMNBlue-light photoreceptor/0.440
2zjwREFCasein kinase II subunit alpha2.7.11.10.440
3lzu017Gag-Pol polyprotein3.4.23.160.440
3nu3478Gag-Pol polyprotein3.4.23.160.440
4b8wNAPGDP-L-fucose synthase1.1.1.2710.440
4dshFDAUncharacterized protein/0.440
4fryNADPutative signal-transduction protein with CBS domains/0.440
4fsnA58Serine/threonine-protein kinase Chk12.7.11.10.440
4ft7H3KSerine/threonine-protein kinase Chk12.7.11.10.440
4fv6E57Mitogen-activated protein kinase 12.7.11.240.440
4y12AGSSerine/threonine-protein kinase PknG2.7.11.10.440
5c8wPCGcGMP-dependent protein kinase 22.7.11.120.440