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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
2v1aFMNNPH1-1

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
2v1aFMNNPH1-1/1.000
2v0uFMNNPH1-1/0.688
5efwFMNNPH1-1/0.568
4hhdFMNPhototropin-12.7.11.10.564
5djuFMNNPH1-2/0.563
5djtFMNNPH1-2/0.554
4eepFMNPhototropin-22.7.11.10.543
1g28FMNPHY3/0.542
3ue6FMNAureochrome1/0.532
4eerFMNPhototropin-22.7.11.10.527
4eesFMNPhototropin-22.7.11.10.524
4hj6FMNLOV protein/0.516
4eetFMNPhototropin-22.7.11.10.511
2pd8FADVivid PAS protein VVD/0.501
1n9nFMNPutative blue light receptor/0.498
2mwgFMNBlue-light photoreceptor/0.495
5dkkFMNPredicted protein/0.493
2pd7FADVivid PAS protein VVD/0.489
2z6dFMNPhototropin-22.7.11.10.488
5dp2NAPCurF/0.486
1n9lFMNPutative blue light receptor/0.484
4echFADPolyamine oxidase FMS1/0.483
4hiaFMNLOV protein/0.483
2ejzSAHDiphthine synthase/0.482
2z6cFMNPhototropin-12.7.11.10.481
4kuoRBFPutative blue-light photoreceptor/0.481
2hckQUETyrosine-protein kinase HCK2.7.10.20.480
2pr5FMNBlue-light photoreceptor/0.480
4gt8ADPSensor protein VraS2.7.13.30.480
1ot7IU5Bile acid receptor/0.478
2ifaFMNUncharacterized protein/0.478
3ske054Genome polyprotein2.7.7.480.478
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.477
2pdtFADVivid PAS protein VVD/0.477
4z24FADPutative GMC-type oxidoreductase R13510.477
2xlrFADPutative flavin-containing monooxygenase/0.475
4hj4FMNLOV protein/0.475
3ozd4CTS-methyl-5'-thioadenosine phosphorylase/0.474
3t50FMNBlue-light-activated histidine kinase2.7.13.30.474
4kukRBFPutative blue-light photoreceptor/0.474
3b9lAZZSerum albumin/0.471
4dpuAGSMevalonate diphosphate decarboxylase/0.471
1pqc444Oxysterols receptor LXR-beta/0.470
3sw1FMNSensory box protein/0.470
3h3t16HCollagen type IV alpha-3-binding protein/0.468
4r3aRBFBlue-light-activated histidine kinase 22.7.13.30.468
2h447CAcGMP-specific 3',5'-cyclic phosphodiesterase/0.467
2rcyNAPPyrroline-5-carboxylate reductase/0.467
4eeuFMNPhototropin-22.7.11.10.467
4u0mGTPCyclic GMP-AMP synthase/0.467
4wujFMNGlycoside hydrolase family 15, cellulose signaling associated protein envoy/0.467
1ay0TPPTransketolase 12.2.1.10.466
2ebaFADPutative glutaryl-CoA dehydrogenase/0.466
3h3sH15Collagen type IV alpha-3-binding protein/0.466
4iqlFMNEnoyl-(Acyl-carrier-protein) reductase II/0.466
1i59ANPChemotaxis protein CheA2.7.13.30.465
1rt9IMHPurine nucleoside phosphorylase2.4.2.10.465
3clsFADElectron transfer flavoprotein subunit alpha/0.465
3flkNAITartrate dehydrogenase/decarboxylase1.1.1.930.465
3is2FADVivid PAS protein VVD/0.465
1gqtACPRibokinase/0.464
1i59ADPChemotaxis protein CheA2.7.13.30.464
1tilATPAnti-sigma F factor/0.464
3slkNDPPolyketide synthase extender module 2/0.464
4bfxZVXPantothenate kinase2.7.1.330.464
1i5bANPChemotaxis protein CheA2.7.13.30.463
2gc8885Polyprotein/0.463
3clrFADElectron transfer flavoprotein subunit alpha/0.463
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.463
3p7nFMNLight-activated DNA-binding protein EL222/0.463
5af7FADAcyl-CoA dehydrogenase/0.463
1bk0ACVIsopenicillin N synthase1.21.3.10.462
1dr3TAPDihydrofolate reductase1.5.1.30.462
2ekpNAD2-deoxy-D-gluconate 3-dehydrogenase/0.462
3qwbNDPProbable quinone oxidoreductase1.6.5.50.462
4r1fADPDNA topoisomerase 2-alpha5.99.1.30.462
4r38RBFBlue-light-activated histidine kinase 22.7.13.30.462
1thnADPAnti-sigma F factor/0.461
1yb5NAPQuinone oxidoreductase1.6.5.50.460
3w32W32Epidermal growth factor receptor2.7.10.10.460
4wudANPDNA gyrase subunit B/0.460
5cnnANPEpidermal growth factor receptor2.7.10.10.460
2e16SAHDiphthine synthase/0.459
2x7jTPP2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase/0.459
3nbvANPKetohexokinase/0.459
4ji91M3Tyrosine-protein kinase JAK2/0.459
6coxS58Prostaglandin G/H synthase 21.14.99.10.459
1ot7CHCBile acid receptor/0.458
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.458
2rgoFADAlpha-Glycerophosphate Oxidase/0.458
1g1aNADdTDP-glucose 4,6-dehydratase/0.457
2vigFADShort-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.10.457
2yyiFAD4-hydroxyphenylacetate 3-monooxygenase oxygenase component1.14.14.90.457
3qlrNDPDihydrofolate reductase1.5.1.30.457
3sn7540cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.457
3wv9FEGHmd co-occurring protein HcgE/0.457
1xkvATPPhosphoenolpyruvate carboxykinase (ATP)/0.456
2nniMTKCytochrome P450 2C8/0.456
2o1sTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.456
3uk6ADPRuvB-like 23.6.4.120.456
5a3cNADSIR2 family protein/0.456
1ai9NDPDihydrofolate reductase1.5.1.30.455
1b5tFAD5,10-methylenetetrahydrofolate reductase1.5.1.200.455
1q12ATPMaltose/maltodextrin import ATP-binding protein MalK/0.455
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.455
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.455
3dhcCYKN-acyl homoserine lactonase AiiA3.1.1.810.455
3gfbNADL-threonine 3-dehydrogenase/0.455
3lu1UD2UDP-N-acetylglucosamine 4-epimerase/0.455
3p3zP3ZPutative cytochrome P450/0.455
4b1rITCTetracycline repressor protein class D/0.455
4b5pACOAlpha-tubulin N-acetyltransferase 1/0.455
5j4eFMNSensory box protein/0.455
1bwlFMNNADPH dehydrogenase 11.6.99.10.454
1q0zAKAAclacinomycin methylesterase RdmC3.1.1.950.454
1qiqACCIsopenicillin N synthase1.21.3.10.454
1qorNDPQuinone oxidoreductase 1/0.454
2iodMYCDihydroflavonol 4-reductase1.1.1.2190.454
2ivnANPtRNA N6-adenosine threonylcarbamoyltransferase/0.454
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.454
3ozc4CTS-methyl-5'-thioadenosine phosphorylase/0.454
3w4yFADMitochondrial FAD-linked sulfhydryl oxidase ERV11.8.3.20.454
4f7iNAD3-isopropylmalate dehydrogenase1.1.1.850.454
4ih71ERGenome polyprotein2.7.7.480.454
4uyf73BBromodomain-containing protein 2/0.454
1dr2TAPDihydrofolate reductase1.5.1.30.453
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.453
1x8lOXRRetinol dehydratase/0.453
2xvv9DNSerum albumin/0.453
3b6zCO7Enoyl reductase LovC10.453
3coy53HPantothenate synthetase6.3.2.10.453
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.453
3lqfNADGalactitol dehydrogenase/0.453
4y0kNAPAntE/0.453
1bxkNADdTDP-glucose 4,6-dehydratase 2/0.452
1gv0NADMalate dehydrogenase/0.452
1osvCHCBile acid receptor/0.452
1s7gNADNAD-dependent protein deacylase 2/0.452
1xkdNAPIsocitrate dehydrogenase [NADP]/0.452
2gjlFMNNitronate monooxygenase1.13.12.160.452
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.452
2owfSAHDiphthine synthase/0.452
2qs3UBEGlutamate receptor ionotropic, kainate 1/0.452
3ch6311Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.452
3oqkS52Renin3.4.23.150.452
3tjzGNPADP-ribosylation factor 1/0.452
1i5rHYCEstradiol 17-beta-dehydrogenase 11.1.1.620.451
1nzdUPGDNA beta-glucosyltransferase/0.451
2c0oL2GTyrosine-protein kinase HCK2.7.10.20.451
2c54NADGDP-mannose 3,5-epimerase5.1.3.180.451
3phiNDPShikimate dehydrogenase (NADP(+))/0.451
4cvmANPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase/0.451
4gyzD5MTyrosyl-DNA phosphodiesterase 23.1.40.451
4hnbFMNLOV protein/0.451
4u8iFDAUDP-galactopyranose mutase/0.451
5a3bAPRSIR2 family protein/0.451
5ej4TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase/0.451
1ia1NDPDihydrofolate reductase1.5.1.30.450
1xe55FEPlasmepsin-23.4.23.390.450
2b7aIZATyrosine-protein kinase JAK2/0.450
2e9dB76Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.450
2w6oOA3Biotin carboxylase6.3.4.140.450
3d8vUD1Bifunctional protein GlmU/0.450
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.450
4ehzJAKTyrosine-protein kinase JAK1/0.450
4gxs0YSGlutamate receptor 2/0.450
1rfuADPPyridoxal kinase2.7.1.350.449
1zq5E04Aldo-keto reductase family 1 member C3/0.449
2aa3AP0L-lactate dehydrogenase/0.449
2bu9HFVIsopenicillin N synthase1.21.3.10.449
2dvlFADAcyl-CoA dehydrogenase/0.449
2z4sADPChromosomal replication initiator protein DnaA/0.449
3ivgFG5Pantothenate synthetase6.3.2.10.449
3ml8ML8Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.449
3w5rLOAVitamin D3 receptor/0.449
4m87NADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.449
4xnhACON-terminal acetyltransferase A complex subunit NAT52.3.10.449
5dozNDPJamJ/0.449
1t2cNAIL-lactate dehydrogenase1.1.1.270.448
1yc2NADNAD-dependent protein deacylase 2/0.448
3cinNADMyo-inositol-1-phosphate synthase-related protein/0.448
3cukFADD-amino-acid oxidase1.4.3.30.448
3rueNADUDP-N-acetylglucosamine 4-epimerase/0.448
4fvqATPTyrosine-protein kinase JAK2/0.448
4l0qNADAlcohol dehydrogenase class-3/0.448
5eioNAP[LysW]-L-2-aminoadipate 6-phosphate reductase/0.448
5i4nATPTyrosine-protein kinase JAK2/0.448
1xagNAD3-dehydroquinate synthase/0.447
2c59NADGDP-mannose 3,5-epimerase5.1.3.180.447
3rucNADUDP-N-acetylglucosamine 4-epimerase/0.447
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.447
1go2FADFerredoxin--NADP reductase1.18.1.20.446
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.446
1i2cUPGUDP-sulfoquinovose synthase, chloroplastic3.13.1.10.446
1zp3FAD5,10-methylenetetrahydrofolate reductase1.5.1.200.446
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.446
3a0tADPSensor histidine kinase/0.446
3ln1CELProstaglandin G/H synthase 21.14.99.10.446
4nd3NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.446
1me6IVSPlasmepsin-23.4.23.390.445
1pzfA3DLactate dehydrogenase/0.445
1u8fNADGlyceraldehyde-3-phosphate dehydrogenase1.2.1.120.445
2ahrNAPPyrroline-5-carboxylate reductase/0.445
2f7x4EAcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.445
3fznD7KBenzoylformate decarboxylase4.1.1.70.445
3hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.445
3invNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.445
3k3ePDBHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.445
3mvqNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.445
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.445
2bxqIMNSerum albumin/0.444
2dv7SAHDiphthine synthase/0.444
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.444
2y05NAPProstaglandin reductase 1/0.444
3dolGWIPol protein/0.444
3nh8DC2N-acyl-aromatic-L-amino acid amidohydrolase (carboxylate-forming)3.5.1.1140.444
1siqFADGlutaryl-CoA dehydrogenase, mitochondrial1.3.8.60.443
1u3dFADCryptochrome-1/0.443
1uzwCDHIsopenicillin N synthase1.21.3.10.443
2ft9CHDFatty acid-binding protein 2, liver/0.443
2i0y5CNMacrophage colony-stimulating factor 1 receptor2.7.10.10.443
2ou2ACOHistone acetyltransferase KAT5/0.443
2x0eTYDWsaF/0.443
3fstFAD5,10-methylenetetrahydrofolate reductase1.5.1.200.443
3ihgVAKAklavinone 12-hydroxylase RdmE/0.443
3kb1ADPIron-sulfur cluster carrier protein/0.443
3s1dZIRCytokinin dehydrogenase 11.5.99.120.443
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.443
4fryNADPutative signal-transduction protein with CBS domains/0.443
4g1cCNANAD-dependent protein deacylase sirtuin-5, mitochondrial/0.443
4isk1JYThymidylate synthase/0.443
4kzoNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.443
4y1bNAPAntE/0.443
4y9lFADAcyl-CoA dehydrogenase family member 11/0.443
5ej6TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase/0.443
1drhNAPDihydrofolate reductase1.5.1.30.442
1g2vTTPGlucose-1-phosphate thymidylyltransferase/0.442
1ps9MDE2,4-dienoyl-CoA reductase1.3.1.340.442
2wetFADTryptophan 5-halogenase/0.442
3a9wNADNDP-sugar epimerase/0.442
3bl7DD1m7GpppX diphosphatase3.6.1.590.442
3h06VBPGlutamate receptor 2/0.442
3h3r14HCollagen type IV alpha-3-binding protein/0.442
3lpbNVBTyrosine-protein kinase JAK2/0.442
3ruhNADUDP-N-acetylglucosamine 4-epimerase/0.442
4dc0NDPPutative ketoacyl reductase1.3.10.442
4jqlVJ6Heat shock protein HSP 90-alpha/0.442
4ly91YYGlucokinase regulatory protein/0.442
4prxADPDNA gyrase subunit B/0.442
4wdb2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.442
5b1yNDP3-oxoacyl-[acyl-carrier-protein] reductase/0.442
5ej5TD62-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase/0.442
1p0fNAPNADP-dependent alcohol dehydrogenase1.1.1.20.441
1qgyFADFerredoxin--NADP reductase1.18.1.20.441
1rszDIHPurine nucleoside phosphorylase2.4.2.10.441
3a1cACPProbable copper-exporting P-type ATPase A3.6.3.540.441
3cntFADPolyamine oxidase FMS1/0.441
3gwfNAPCyclohexanone monooxygenase/0.441
3q3cNADNAD-dependent L-serine dehydrogenase/0.441
4a312CBGlycylpeptide N-tetradecanoyltransferase/0.441
1bcpATPPertussis toxin subunit 4/0.440
1bcpATPPertussis toxin subunit 5/0.440
1cjkFOKAdenylate cyclase type 2/0.440
1cjkFOKAdenylate cyclase type 5/0.440
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.440
1pzgA3DLactate dehydrogenase/0.440
1tqf32PBeta-secretase 13.4.23.460.440
2bxmIMNSerum albumin/0.440
2ejjSAHDiphthine synthase/0.440
2iviACWIsopenicillin N synthase1.21.3.10.440
2xhd7T9Glutamate receptor 2/0.440
2yylFAD4-hydroxyphenylacetate 3-monooxygenase oxygenase component1.14.14.90.440
3dvlATPCircadian clock protein kinase KaiC2.7.11.10.440
3lfcZ86Mitogen-activated protein kinase 14/0.440
3vrwYS5Vitamin D3 receptor/0.440
4kfqKFQGlutamate receptor ionotropic, NMDA 1/0.440
4njoNADD-3-phosphoglycerate dehydrogenase, putative/0.440
4qecNAPElxO/0.440
4riyADPEpidermal growth factor receptor2.7.10.10.440
4ubvCOASteroid 3-ketoacyl-CoA thiolase/0.440
4wuoNAD3-isopropylmalate dehydrogenase1.1.1.850.440
5eccNAPDehydrofolate reductase type I/0.440