Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
5efwFMNNPH1-1

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
5efwFMNNPH1-1/1.000
2v1aFMNNPH1-1/0.609
4eepFMNPhototropin-22.7.11.10.584
4eetFMNPhototropin-22.7.11.10.570
1g28FMNPHY3/0.569
4eesFMNPhototropin-22.7.11.10.557
2v0uFMNNPH1-1/0.543
5djtFMNNPH1-2/0.532
5djuFMNNPH1-2/0.529
4eerFMNPhototropin-22.7.11.10.528
4hhdFMNPhototropin-12.7.11.10.526
3ue6FMNAureochrome1/0.523
4hj6FMNLOV protein/0.515
5dkkFMNPredicted protein/0.513
4kuoRBFPutative blue-light photoreceptor/0.506
4kukRBFPutative blue-light photoreceptor/0.504
2pdtFADVivid PAS protein VVD/0.502
2z6cFMNPhototropin-12.7.11.10.501
2z6dFMNPhototropin-22.7.11.10.500
4gt8ADPSensor protein VraS2.7.13.30.497
1n9lFMNPutative blue light receptor/0.494
2c54NADGDP-mannose 3,5-epimerase5.1.3.180.494
4hiaFMNLOV protein/0.492
3t50FMNBlue-light-activated histidine kinase2.7.13.30.490
1n9nFMNPutative blue light receptor/0.488
1hb1OCVIsopenicillin N synthase1.21.3.10.485
1xagNAD3-dehydroquinate synthase/0.485
2gjlFMNNitronate monooxygenase1.13.12.160.485
4bfvZVVPantothenate kinase2.7.1.330.483
3is2FADVivid PAS protein VVD/0.482
3ske054Genome polyprotein2.7.7.480.480
2ekpNAD2-deoxy-D-gluconate 3-dehydrogenase/0.479
2pd8FADVivid PAS protein VVD/0.479
4do30LAFatty-acid amide hydrolase 13.5.1.990.476
2y60M8FIsopenicillin N synthase1.21.3.10.475
2rgoFADAlpha-Glycerophosphate Oxidase/0.474
1bk0ACVIsopenicillin N synthase1.21.3.10.470
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.469
4wujFMNGlycoside hydrolase family 15, cellulose signaling associated protein envoy/0.469
2o1sTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.468
1ot7IU5Bile acid receptor/0.467
2pd7FADVivid PAS protein VVD/0.467
2pr5FMNBlue-light photoreceptor/0.467
3p7nFMNLight-activated DNA-binding protein EL222/0.467
3zoiM2WIsopenicillin N synthase1.21.3.10.467
4a84DXCMajor pollen allergen Bet v 1-A/0.467
4ih71ERGenome polyprotein2.7.7.480.467
4r38RBFBlue-light-activated histidine kinase 22.7.13.30.467
4wo5324Serine/threonine-protein kinase B-raf2.7.11.10.467
3g45988cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.465
3sw1FMNSensory box protein/0.464
4eeuFMNPhototropin-22.7.11.10.464
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.463
1xddAAYIntegrin alpha-L/0.462
3qwbNDPProbable quinone oxidoreductase1.6.5.50.462
4udrFAD5-(hydroxymethyl)furfural oxidase/0.462
1dr2TAPDihydrofolate reductase1.5.1.30.461
3sf6FDAGlutaryl-CoA dehydrogenase/0.461
4bfzZVZPantothenate kinase2.7.1.330.461
3d72FADVivid PAS protein VVD/0.460
1w06W05Isopenicillin N synthase1.21.3.10.459
2xvw9NRSerum albumin/0.459
4bfxZVXPantothenate kinase2.7.1.330.459
4i8vBHFCytochrome P450 1A11.14.14.10.458
1ai9NDPDihydrofolate reductase1.5.1.30.457
2aj4ANPGalactokinase2.7.1.60.457
2bfqAR6[Protein ADP-ribosylglutamate] hydrolase AF_15213.2.20.457
2ifaFMNUncharacterized protein/0.457
3csoXNIGenome polyprotein2.7.7.480.457
3hl0NADMaleylacetate reductase/0.457
3jsiWTCHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.457
3kjrNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.457
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.457
4xnhACON-terminal acetyltransferase A complex subunit NAT52.3.10.457
1me6IVSPlasmepsin-23.4.23.390.456
1uxjNADMalate dehydrogenase/0.456
2hrcCHDFerrochelatase, mitochondrial4.99.1.10.456
3invNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.456
3vg10GTBeta-secretase 13.4.23.460.456
4bbxLKFcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.456
4q71FADBifunctional protein PutA/0.456
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.455
3clsFADElectron transfer flavoprotein subunit alpha/0.455
3fznD7KBenzoylformate decarboxylase4.1.1.70.455
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.455
2d1cNAPIsocitrate dehydrogenase [NADP]1.1.1.420.454
2ddoATPPyridoxine/pyridoxal/pyridoxamine kinase/0.454
2xvv9DNSerum albumin/0.454
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.454
5dp2NAPCurF/0.454
2iviACWIsopenicillin N synthase1.21.3.10.453
3q3cNADNAD-dependent L-serine dehydrogenase/0.453
4a83DXCMajor pollen allergen Bet v 1-A/0.453
1g1aNADdTDP-glucose 4,6-dehydratase/0.452
1menGARTrifunctional purine biosynthetic protein adenosine-32.1.2.20.452
1q0rAKTAclacinomycin methylesterase RdmC3.1.1.950.452
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.452
4dc0NDPPutative ketoacyl reductase1.3.10.452
1dg8NDPDihydrofolate reductase1.5.1.30.451
1qiqACCIsopenicillin N synthase1.21.3.10.451
2ejzSAHDiphthine synthase/0.451
2jb4A14Isopenicillin N synthase1.21.3.10.451
1yvfPH7Polyprotein/0.450
2gpjFADSiderophore-interacting protein/0.450
3qlsNDPDihydrofolate reductase1.5.1.30.450
3uph0C1Genome polyprotein2.7.7.480.450
3wv9FEGHmd co-occurring protein HcgE/0.450
4at0FADPossible succinate dehydrogenase/0.450
4dpuAGSMevalonate diphosphate decarboxylase/0.450
4qx5CMPcGMP-dependent protein kinase 12.7.11.120.450
1uaeUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.449
2c59NADGDP-mannose 3,5-epimerase5.1.3.180.449
2g1s4IGRenin3.4.23.150.449
2po7CHDFerrochelatase, mitochondrial4.99.1.10.449
3cluFADElectron transfer flavoprotein subunit alpha/0.449
4b4vL34Bifunctional protein FolD/0.449
4bfuZVUPantothenate kinase2.7.1.330.449
4gxs0YSGlutamate receptor 2/0.449
4uwmFMN3,6-diketocamphane 1,6 monooxygenase1.14.130.449
1lbcCYZGlutamate receptor 2/0.448
2aviBTNAvidin/0.448
2bu9HFVIsopenicillin N synthase1.21.3.10.448
2ed3SAHDiphthine synthase/0.448
2gc8885Polyprotein/0.448
2hckQUETyrosine-protein kinase HCK2.7.10.20.448
3phiNDPShikimate dehydrogenase (NADP(+))/0.448
3zkyWT4Isopenicillin N synthase1.21.3.10.448
1sb9UPGWbpP/0.447
2cv2GSUGlutamate--tRNA ligase6.1.1.170.447
2e8rSAHDiphthine synthase/0.447
2vd0D27Hematopoietic prostaglandin D synthase/0.447
2yq92AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.447
1fm4DXCMajor pollen allergen Bet v 1-L/0.446
1i8tFADUDP-galactopyranose mutase5.4.99.90.446
1pqc444Oxysterols receptor LXR-beta/0.446
2abjCBCBranched-chain-amino-acid aminotransferase, cytosolic2.6.1.420.446
2ql6ADPNicotinamide riboside kinase 1/0.446
2y6fM9FIsopenicillin N synthase1.21.3.10.446
4bb3KKAIsopenicillin N synthase1.21.3.10.446
4eagATP5'-AMP-activated protein kinase subunit gamma-1/0.446
4ubvCOASteroid 3-ketoacyl-CoA thiolase/0.446
5bt42LOBromodomain-containing protein 4/0.446
1lf2R37Plasmepsin-23.4.23.390.445
2ji9TPWOxalyl-CoA decarboxylase4.1.1.80.445
3in6FMNUncharacterized protein/0.445
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.445
3mvqNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.445
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.445
1knpFADL-aspartate oxidase1.4.3.160.444
1mvtDTMDihydrofolate reductase1.5.1.30.444
2bsxNOSPurine nucleoside phosphorylase/0.444
2gjnFMNNitronate monooxygenase1.13.12.160.444
2r0cFADPutative FAD-monooxygenase/0.444
2xlrFADPutative flavin-containing monooxygenase/0.444
3h06VBPGlutamate receptor 2/0.444
3h3sH15Collagen type IV alpha-3-binding protein/0.444
3p0fBAUUridine phosphorylase 22.4.2.30.444
4b12C23Glycylpeptide N-tetradecanoyltransferase/0.444
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
4ih61EPGenome polyprotein2.7.7.480.444
1culFOKAdenylate cyclase type 2/0.443
1culFOKAdenylate cyclase type 5/0.443
1dr3TAPDihydrofolate reductase1.5.1.30.443
1ia1NDPDihydrofolate reductase1.5.1.30.443
1p0hACOMycothiol acetyltransferase2.3.1.1890.443
4bftZVTPantothenate kinase2.7.1.330.443
1thnADPAnti-sigma F factor/0.442
1udaUFGUDP-glucose 4-epimerase5.1.3.20.442
2wbaFADTrypanothione reductase1.8.1.120.442
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.442
3d7kD7KBenzaldehyde lyase/0.442
3upkUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.442
4cf6CBDNAD(P)H dehydrogenase [quinone] 11.6.5.20.442
4ktl1CQCytochrome P450/0.442
4m10ICDProstaglandin G/H synthase 21.14.99.10.442
4m9aFDAAcyl-CoA dehydrogenase/0.442
1xe55FEPlasmepsin-23.4.23.390.441
2fjaFADAdenylylsulfate reductase, subunit A (AprA)/0.441
2fonFADAcyl-coenzyme A oxidase/0.441
2jcxNDP1-deoxy-D-xylulose 5-phosphate reductoisomerase/0.441
2om9AJAPeroxisome proliferator-activated receptor gamma/0.441
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.441
3tk3CPZCytochrome P450 2B41.14.14.10.441
3uf6CODLmo1369 protein/0.441
4cukNAID-lactate dehydrogenase/0.441
4kp71UQ1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic1.1.1.2670.441
4r1lADPPhenylacetate-coenzyme A ligase/0.441
5eoyADPType 4 fimbrial biogenesis protein PilM/0.441
1tj0FADBifunctional protein PutA1.5.5.20.440
1vbiNADMalate/L-lactate dehydrogenase family protein/0.440
1xkdNAPIsocitrate dehydrogenase [NADP]/0.440
2a0wDIHPurine nucleoside phosphorylase2.4.2.10.440
4h8aNAIUreidoglycolate dehydrogenase (NAD(+))1.1.1.3500.440
4ji91M3Tyrosine-protein kinase JAK2/0.440
4rquNADAlcohol dehydrogenase class-P/0.440