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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
3djl FAD Putative acyl-CoA dehydrogenase AidB 1.3.99

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3djl FADPutative acyl-CoA dehydrogenase AidB 1.3.99 1.273
3u33 FADPutative acyl-CoA dehydrogenase AidB 1.3.99 1.172
4y9l FADAcyl-CoA dehydrogenase family member 11 / 0.950
4iv6 FDAIsovaleryl-CoA dehydrogenase / 0.864
3p4t FAOPutative acyl-CoA dehydrogenase / 0.809
3oib FDAPutative acyl-CoA dehydrogenase / 0.808
1buc FADAcyl-CoA dehydrogenase, short-chain specific 1.3.8.1 0.803
2z1q FADAcyl-CoA dehydrogenase / 0.794
2d29 FADAcyl-CoA dehydrogenase / 0.793
2pg0 FADAcyl-CoA dehydrogenase / 0.793
3nf4 FADAcyl-CoA dehydrogenase domain-containing protein / 0.793
3pfd FDAAcyl-CoA dehydrogenase FadE25 / 0.793
4x28 FDAAcyl-CoA dehydrogenase FadE26 / 0.769
4x28 FDAAcyl-CoA dehydrogenase FadE27 / 0.769
3eo8 FMNPutative nitroreductase / 0.763
5jsc FADPutative acyl-CoA dehydrogenase / 0.763
3sf6 FDAGlutaryl-CoA dehydrogenase / 0.759
2eba FADPutative glutaryl-CoA dehydrogenase / 0.757
1jqi FADShort-chain specific acyl-CoA dehydrogenase, mitochondrial / 0.755
1egd FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.751
2fon FADAcyl-coenzyme A oxidase / 0.749
2vig FADShort-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.1 0.748
1yki FMNOxygen-insensitive NAD(P)H nitroreductase / 0.745
2pr5 FMNBlue-light photoreceptor / 0.738
2wzv FMNNitroreductase NfnB / 0.738
3mkh FADNitroalkane oxidase / 0.738
3owa FADAcyl-CoA dehydrogenase / 0.735
2dvl FADAcyl-CoA dehydrogenase / 0.731
1u8v FAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase / 0.729
2wzw FMNNitroreductase NfnB / 0.724
2fcr FMNFlavodoxin / 0.721
3mpi FADGlutaryl-CoA dehydrogenase 1.3.99.32 0.719
4hnb FMNLOV protein / 0.718
2ix5 FADAcyl-coenzyme A oxidase 4, peroxisomal 1.3.3.6 0.717
3mdd FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.716
1kqb FMNOxygen-insensitive NAD(P)H nitroreductase / 0.714
3w8w FADPutative FAD-dependent oxygenase EncM / 0.713
4m9a FDAAcyl-CoA dehydrogenase / 0.710
3ge6 FMNNitroreductase / 0.709
4ees FMNPhototropin-2 2.7.11.1 0.708
2i51 FMNPyridoxamine 5'-phosphate oxidase-related, FMN-binding / 0.706
4hhd FMNPhototropin-1 2.7.11.1 0.705
2z6d FMNPhototropin-2 2.7.11.1 0.704
4kuk RBFPutative blue-light photoreceptor / 0.701
4ttc FMNIodotyrosine deiodinase 1 / 0.701
3gfd FMNIodotyrosine deiodinase 1 1.21.1.1 0.699
4eeu FMNPhototropin-2 2.7.11.1 0.699
5af7 FADAcyl-CoA dehydrogenase / 0.699
5j4e FMNSensory box protein / 0.697
1h83 FADPolyamine oxidase 1.5.3.14 0.696
4eo3 FMNBacterioferritin comigratory protein/NADH dehydrogenase / 0.695
4opl FDAConserved Archaeal protein / 0.695
1oo5 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.692
4p13 FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.692
1kqd FMNOxygen-insensitive NAD(P)H nitroreductase / 0.691
3hj9 FMNUncharacterized protein / 0.690
4kto FADPutative isovaleryl-CoA dehydrogenase protein / 0.689
1x31 FMNSubunit alpha of sarocosine oxidase / 0.688
1x31 FMNSubunit beta of sarcosine oxidase / 0.688
4qly FMNEnone reductase CLA-ER / 0.688
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.687
1vrq FMNSubunit alpha of sarocosine oxidase / 0.687
1vrq FMNSubunit beta of sarcosine oxidase / 0.687
3gdp FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.686
2isl FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.685
4eer FMNPhototropin-2 2.7.11.1 0.685
3gag FMNPutative NADH dehydrogenase NAD(P)H nitroreductase / 0.684
3gh8 FMNIodotyrosine deiodinase 1 1.21.1.1 0.683
1ylr FMNOxygen-insensitive NAD(P)H nitroreductase / 0.682
2yyl FAD4-hydroxyphenylacetate 3-monooxygenase oxygenase component 1.14.14.9 0.682
3pft FMNFlavin reductase / 0.682
5fs7 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.682
4opt FDAConserved Archaeal protein / 0.679
1rx0 FADIsobutyryl-CoA dehydrogenase, mitochondrial 1.3.99 0.678
4eep FMNPhototropin-2 2.7.11.1 0.678
2ohj FMNType A flavoprotein FprA 1 0.677
2yg4 FADPutrescine oxidase / 0.677
1ndh FADNADH-cytochrome b5 reductase 3 1.6.2.2 0.675
2qmy FADRibosyldihydronicotinamide dehydrogenase [quinone] / 0.675
3clt FADElectron transfer flavoprotein subunit alpha / 0.675
4kuo RBFPutative blue-light photoreceptor / 0.675
3fsu FAD5,10-methylenetetrahydrofolate reductase 1.5.1.20 0.674
1a8p FADFerredoxin--NADP reductase / 0.672
2v1a FMNNPH1-1 / 0.672
3up4 FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase 1.14.13.160 0.672
2c12 FADNitroalkane oxidase 1.7.3.1 0.671
3uoz FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase 1.14.13.160 0.671
1ffu FADCarbon monoxide dehydrogenase medium chain / 0.670
3x22 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.670
3a3b RBFLumazine protein / 0.668
2gmj FADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial 1.5.5.1 0.667
2zfa FMNLactate oxidase / 0.667
2yyi FAD4-hydroxyphenylacetate 3-monooxygenase oxygenase component 1.14.14.9 0.665
1vfr FMNMajor NAD(P)H-flavin oxidoreductase 1.6.99 0.664
3clr FADElectron transfer flavoprotein subunit alpha / 0.664
3ept FDAPutative FAD-monooxygenase / 0.664
4yxd FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.664
4opi FDAConserved Archaeal protein / 0.663
1icv FMNOxygen-insensitive NAD(P)H nitroreductase / 0.661
1udy FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.660
4ttb FMNIodotyrosine deiodinase 1 / 0.660
4ytn FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.659
1q1w FADPutidaredoxin reductase 1.18.1.5 0.658
1r2j FADFkbI / 0.658
4f07 FADStyrene monooxygenase component 2 / 0.658
5c2t FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.658
1h81 FADPolyamine oxidase 1.5.3.14 0.657
3k7m FAD6-hydroxy-L-nicotine oxidase / 0.657
4eqw FADCoenzyme A disulfide reductase / 0.657
5c3j FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.657
1jeh FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.656
1zpt FAD5,10-methylenetetrahydrofolate reductase 1.5.1.20 0.656
2isk FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.656
3atq FDAConserved Archaeal protein / 0.656
3atr FDAConserved Archaeal protein / 0.656
3m13 FADMonomeric sarcosine oxidase 1.5.3.1 0.656
5eb5 FAD(R)-mandelonitrile lyase 1 4.1.2.10 0.656
1oon FMNOxygen-insensitive NAD(P)H nitroreductase / 0.655
1eje FMNProtein MTH_152 / 0.654
1ng4 FADGlycine oxidase 1.4.3.19 0.654
3m0o FADMonomeric sarcosine oxidase 1.5.3.1 0.654
1qr2 FADRibosyldihydronicotinamide dehydrogenase [quinone] / 0.653
1tj2 FADBifunctional protein PutA 1.5.5.2 0.653
2a1u FADElectron transfer flavoprotein subunit alpha, mitochondrial / 0.653
4d7e FADPutative lysine-N-oxygenase / 0.653
4wct FADFructosyl amine:oxygen oxidoreductase / 0.653
1iqr FADDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.652
5hxw FADL-amino acid deaminase / 0.652
4yry FADGlutamate synthase, beta subunit / 0.651
3icr FADCoenzyme A disulfide reductase / 0.650
5i39 FADL-amino acid deaminase / 0.650