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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
4eo3 FMN Bacterioferritin comigratory protein/NADH dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4eo3 FMNBacterioferritin comigratory protein/NADH dehydrogenase / 1.346
3bem FMNPutative NAD(P)H nitroreductase MhqN 1 0.923
1ooq FMNOxygen-insensitive NAD(P)H nitroreductase / 0.885
1icu FMNOxygen-insensitive NAD(P)H nitroreductase / 0.884
1oo5 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.854
1oon FMNOxygen-insensitive NAD(P)H nitroreductase / 0.850
3x22 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.839
1kqd FMNOxygen-insensitive NAD(P)H nitroreductase / 0.834
2fre FMNNAD(P)H-flavin oxidoreductase / 0.832
4ttc FMNIodotyrosine deiodinase 1 / 0.829
3ge6 FMNNitroreductase / 0.828
2wzw FMNNitroreductase NfnB / 0.824
2wzv FMNNitroreductase NfnB / 0.823
3gh8 FMNIodotyrosine deiodinase 1 1.21.1.1 0.822
1kqb FMNOxygen-insensitive NAD(P)H nitroreductase / 0.821
3gfd FMNIodotyrosine deiodinase 1 1.21.1.1 0.817
1kqc FMNOxygen-insensitive NAD(P)H nitroreductase / 0.816
1yki FMNOxygen-insensitive NAD(P)H nitroreductase / 0.807
1ds7 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.799
1icv FMNOxygen-insensitive NAD(P)H nitroreductase / 0.797
3gag FMNPutative NADH dehydrogenase NAD(P)H nitroreductase / 0.796
4qly FMNEnone reductase CLA-ER / 0.783
1ylr FMNOxygen-insensitive NAD(P)H nitroreductase / 0.776
3hj9 FMNUncharacterized protein / 0.771
4ttb FMNIodotyrosine deiodinase 1 / 0.770
4xoo FMNCoenzyme F420:L-glutamate ligase / 0.766
1vfr FMNMajor NAD(P)H-flavin oxidoreductase 1.6.99 0.765
2isl FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.763
1ylu FMNOxygen-insensitive NAD(P)H nitroreductase / 0.761
3e39 FMNNitroreductase / 0.757
1nec FMNOxygen-insensitive NAD(P)H nitroreductase 1 0.755
2hay FMNPutative NAD(P)H-flavin oxidoreductase / 0.745
3eo8 FMNPutative nitroreductase / 0.738
2z1q FADAcyl-CoA dehydrogenase / 0.734
3to0 FMNIodotyrosine deiodinase 1 1.21.1.1 0.734
2isk FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.728
3koq FMNPutative nitroreductase / 0.727
4iv6 FDAIsovaleryl-CoA dehydrogenase / 0.723
2dvl FADAcyl-CoA dehydrogenase / 0.721
1udy FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.718
3oib FDAPutative acyl-CoA dehydrogenase / 0.718
3u33 FADPutative acyl-CoA dehydrogenase AidB 1.3.99 0.718
3qdl FMNOxygen-insensitive NADPH nitroreductase / 0.715
1p4m FMNRiboflavin kinase 2.7.1.26 0.710
1pkv RBFRiboflavin synthase 2.5.1.9 0.701
3ept FDAPutative FAD-monooxygenase / 0.698
3pxv FMNNitroreductase / 0.697
2c3d FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.695
3djl FADPutative acyl-CoA dehydrogenase AidB 1.3.99 0.695
1nb9 RBFRiboflavin kinase 2.7.1.26 0.693
1siq FADGlutaryl-CoA dehydrogenase, mitochondrial 1.3.8.6 0.690
3e4v FMNUncharacterized protein / 0.690
2ifa FMNUncharacterized protein / 0.689
2vig FADShort-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.1 0.688
3mkh FADNitroalkane oxidase / 0.688
3nf4 FADAcyl-CoA dehydrogenase domain-containing protein / 0.688
4x28 FDAAcyl-CoA dehydrogenase FadE26 / 0.685
4x28 FDAAcyl-CoA dehydrogenase FadE27 / 0.685
1xdi FADNAD(P)H dehydrogenase (quinone) / 0.684
4p13 FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.684
1mok FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.683
1d7l RFLp-hydroxybenzoate hydroxylase / 0.680
3i99 FADUDP-N-acetylenolpyruvoylglucosamine reductase / 0.680
3x21 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.680
4hh0 FMNAppA protein / 0.680
1gox FMNPeroxisomal (S)-2-hydroxy-acid oxidase 1.1.3.15 0.679
2bkj FMNNADPH-flavin oxidoreductase / 0.679
2yqu FADDihydrolipoyl dehydrogenase / 0.679
5eai FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.677
2isj FMN5,6-dimethylbenzimidazole synthase 1.13.11.79 0.676
4hia FMNLOV protein / 0.676
2hqm FADGlutathione reductase 1.8.1.7 0.675
3mdd FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.673
3tx1 FADUDP-N-acetylenolpyruvoylglucosamine reductase / 0.673
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.672
2gh5 FADGlutathione reductase, mitochondrial 1.8.1.7 0.672
2z6c FMNPhototropin-1 2.7.11.1 0.672
4yus FMNFamily 3 adenylate cyclase / 0.671
3gdp FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.669
3of4 FMNNitroreductase / 0.669
2qae FADDihydrolipoyl dehydrogenase 1.8.1.4 0.668
4hmw FMNPyridoxamine 5'-phosphate oxidase / 0.668
2fzn FADBifunctional protein PutA 1.5.5.2 0.667
4jay FADUDP-N-acetylenolpyruvoylglucosamine reductase / 0.667
1qr2 FADRibosyldihydronicotinamide dehydrogenase [quinone] / 0.666
2wp5 FADTrypanothione reductase / 0.666
1h66 FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.665
1kbq FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.665
4kuk RBFPutative blue-light photoreceptor / 0.664
5hsa FASAlcohol oxidase 1 1.1.3.13 0.664
2q3r FMN12-oxophytodienoate reductase 1 1.3.1.42 0.663
4z9r FMNOmega-3 polyunsaturated fatty acid synthase subunit PfaD / 0.663
5a8a FMNRiboflavin biosynthesis protein RibF 2.7.1.26 0.663
1ffu FADCarbon monoxide dehydrogenase medium chain / 0.662
4jb1 FADUDP-N-acetylenolpyruvoylglucosamine reductase / 0.660
2i02 FMNPyridoxamine 5'-phosphate oxidase-related, FMN-binding / 0.659
2wes FADTryptophan 5-halogenase / 0.659
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.659
4yx6 FMNOmega-3 polyunsaturated fatty acid synthase subunit PfaD / 0.659
2fon FADAcyl-coenzyme A oxidase / 0.658
4m9a FDAAcyl-CoA dehydrogenase / 0.658
5jsc FADPutative acyl-CoA dehydrogenase / 0.658
1ogi FADFerredoxin--NADP reductase 1.18.1.2 0.657
2g37 FADProline dehydrogenase / 0.657
5g3t FDAFlavin-dependent L-tryptophan oxidase VioA / 0.657
1a8p FADFerredoxin--NADP reductase / 0.656
1icq FMN12-oxophytodienoate reductase 1 1.3.1.42 0.656
4tmb FMNOld yellow enzyme / 0.656
1i0s FMNFerric-chelate reductase (NAD(P)H) / 0.655
2fcr FMNFlavodoxin / 0.655
5g3s FDAFlavin-dependent L-tryptophan oxidase VioA / 0.655
1bwl FMNNADPH dehydrogenase 1 1.6.99.1 0.654
1kbo FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.654
3he3 FADUDP-galactopyranose mutase / 0.654
4hmx FMNPyridoxamine 5'-phosphate oxidase / 0.654
4yl2 FMNLactate oxidase / 0.653
1e63 FADFerredoxin--NADP reductase 1.18.1.2 0.652
1ndh FADNADH-cytochrome b5 reductase 3 1.6.2.2 0.652
3p8i FMNPentaerythritol tetranitrate reductase / 0.652
3sqp FADGlutathione reductase, mitochondrial 1.8.1.7 0.652
1z6l FADPolyamine oxidase FMS1 / 0.651
3fcj FADNitroalkane oxidase 1.7.3.1 0.651
3giy FMN(S)-mandelate dehydrogenase 1.1.99.31 0.651
3pfd FDAAcyl-CoA dehydrogenase FadE25 / 0.651
1djq FMNTrimethylamine dehydrogenase 1.5.8.2 0.650