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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
4k7y FMN NADPH dehydrogenase 1 1.6.99.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4k7y FMNNADPH dehydrogenase 1 1.6.99.1 1.317
4h6k FMNNADPH dehydrogenase 1 1.6.99.1 1.304
4rnx FMNNADPH dehydrogenase 1 1.6.99.1 1.296
4tmc FMNOld yellow enzyme / 1.263
1oya FMNNADPH dehydrogenase 1 1.6.99.1 1.246
1bwk FMNNADPH dehydrogenase 1 1.6.99.1 1.172
1oyc FMNNADPH dehydrogenase 1 1.6.99.1 1.167
4df2 FMNNADPH dehydrogenase / 1.141
3tjl FMNNADPH dehydrogenase / 1.123
1h63 FMNPentaerythritol tetranitrate reductase / 1.108
1gwj FMNMorphinone reductase / 1.104
1vyr FMNPentaerythritol tetranitrate reductase / 1.093
4awt FMNNADH:flavin oxidoreductase Sye1 / 1.093
3f03 FMNPentaerythritol tetranitrate reductase / 1.089
4aws FMNNADH:flavin oxidoreductase Sye1 / 1.074
1h51 FMNPentaerythritol tetranitrate reductase / 1.072
4tmb FMNOld yellow enzyme / 1.068
1h50 FMNPentaerythritol tetranitrate reductase / 1.063
3p84 FMNPentaerythritol tetranitrate reductase / 1.059
3p8j FMNPentaerythritol tetranitrate reductase / 1.058
3p67 FMNPentaerythritol tetranitrate reductase / 1.057
4jic FMNGTN Reductase / 1.057
1icq FMN12-oxophytodienoate reductase 1 1.3.1.42 1.031
3hgr FMN12-oxophytodienoate reductase 1 1.3.1.42 1.029
3aty FMNProstaglandin F2a synthase / 1.016
1ics FMN12-oxophytodienoate reductase 1 1.3.1.42 0.994
1vji FMN12-oxophytodienoate reductase 1 1.3.1.42 0.989
4rnw FMNNADPH dehydrogenase 1 1.6.99.1 0.981
3gka FMNN-ethylmaleimide reductase / 0.979
3atz FMNProstaglandin F2a synthase / 0.971
4e2d FMNDehydrogenase / 0.965
4b5n FMNNAD(P)H:flavin oxidoreductase Sye4 / 0.958
4utl FNRXenobiotic reductase / 0.957
4e2b FMNDehydrogenase / 0.956
3p62 FMNPentaerythritol tetranitrate reductase / 0.951
3p8i FMNPentaerythritol tetranitrate reductase / 0.950
2abb FMNPentaerythritol tetranitrate reductase / 0.946
1icp FMN12-oxophytodienoate reductase 1 1.3.1.42 0.943
2h8x FMNXenA / 0.939
3p74 FMNPentaerythritol tetranitrate reductase / 0.936
4qai FMNNADPH dehydrogenase / 0.936
4rnv FMNNADPH dehydrogenase 1 1.6.99.1 0.934
4utm FNRXenobiotic reductase / 0.933
3l5l FMNXenobiotic reductase / 0.920
3p82 FMNPentaerythritol tetranitrate reductase / 0.916
3l67 FMNXenobiotic reductase / 0.902
3kru FMNNADH:flavin oxidoreductase/NADH oxidase / 0.897
4utk FNRXenobiotic reductase / 0.896
1bwl FMNNADPH dehydrogenase 1 1.6.99.1 0.895
4xq6 FMNDihydroorotate dehydrogenase (quinone) / 0.888
2q3r FMN12-oxophytodienoate reductase 1 1.3.1.42 0.885
2gqa FMNNADH:flavin oxidoreductase Sye1 / 0.874
2gou FMNNADH:flavin oxidoreductase Sye1 / 0.872
3hf3 FMNChromate reductase / 0.864
3n19 FNRXenobiotic reductase / 0.861
1z48 FMNNADPH dehydrogenase / 0.857
4a3u FMNNADH:flavin oxidoreductase/NADH oxidase / 0.854
4uth FMNXenobiotic reductase / 0.854
1z44 FMNNADPH dehydrogenase / 0.853
1z41 FMNNADPH dehydrogenase / 0.852
1uum FMNDihydroorotate dehydrogenase (quinone), mitochondrial 1.3.5.2 0.844
2hsa FMN12-oxophytodienoate reductase 3 1.3.1.42 0.843
4ef9 FMNDihydroorotate dehydrogenase (fumarate) / 0.831
2hs8 FMN12-oxophytodienoate reductase 3 1.3.1.42 0.824
1k02 FMNNADPH dehydrogenase 1 1.6.99.1 0.820
1jub FMNDihydroorotate dehydrogenase A (fumarate) 1.3.98.1 0.819
4yco FMNtRNA-dihydrouridine(16) synthase / 0.818
2hs6 FMN12-oxophytodienoate reductase 3 1.3.1.42 0.815
4qnw FMNChanoclavine-I aldehyde reductase easA / 0.815
2djl FMNDihydroorotate dehydrogenase (fumarate) 1.3.98.1 0.812
4ycp FMNtRNA-dihydrouridine(16) synthase / 0.811
3n14 FMNXenobiotic reductase / 0.809
4wzh FMNDihydroorotate dehydrogenase (fumarate) / 0.809
3hgo FMN12-oxophytodienoate reductase 3 1.3.1.42 0.806
1h7w FMNDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.803
1vhn FMNtRNA-dihydrouridine synthase / 0.799
3c3n FMNDihydroorotate dehydrogenase (fumarate) 1.3.98.1 0.797
3hgs FMN12-oxophytodienoate reductase 3 1.3.1.42 0.793
1q45 FMN12-oxophytodienoate reductase 3 1.3.1.42 0.790
2j6x FMNLactate oxidase / 0.779
4yl2 FMNLactate oxidase / 0.779
5cpm FNRNADH:flavin oxidoreductase / 0.779
2zru FMNIsopentenyl-diphosphate delta-isomerase / 0.778
2bsl FMNDihydroorotate dehydrogenase A (fumarate) 1.3.98.1 0.773
1ofd FMNFerredoxin-dependent glutamate synthase 2 1.4.7.1 0.759
4rje FNRLactate oxidase / 0.756
4rnu FMNNADPH dehydrogenase 1 1.6.99.1 0.755
3gye FMNDihydroorotate dehydrogenase (fumarate) / 0.747
4bf9 FMNtRNA-dihydrouridine(16) synthase / 0.747
3gr8 FMNNADPH dehydrogenase / 0.745
4cw5 FMNDfnA / 0.743
2zrz FNRIsopentenyl-diphosphate delta-isomerase / 0.734
1kbj FMNCytochrome b2, mitochondrial 1.1.2.3 0.732
1ep3 FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit 1.3.1.14 0.729
2e77 FMNLactate oxidase / 0.723
1kbi FMNCytochrome b2, mitochondrial 1.1.2.3 0.720
4yx6 FMNOmega-3 polyunsaturated fatty acid synthase subunit PfaD / 0.714
2gjl FMNNitronate monooxygenase 1.13.12.16 0.712
1d4a FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.706
3b04 OOPIsopentenyl-diphosphate delta-isomerase / 0.706
1kbq FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.701
3w77 FMNFMN-dependent NADH-azoreductase / 0.701
1h66 FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.694
2zrx FMNIsopentenyl-diphosphate delta-isomerase / 0.693
3vkj FNRIsopentenyl-diphosphate delta-isomerase / 0.689
4m5p FMNNADPH dehydrogenase / 0.689
2a1t FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.686
2z9d FMNFMN-dependent NADH-azoreductase / 0.685
4qoe FADRibosyldihydronicotinamide dehydrogenase [quinone] / 0.685
4zvl FADRibosyldihydronicotinamide dehydrogenase [quinone] / 0.685
4gi5 FADPutative NAD(P)H dehydrogenase (Quinone) / 0.684
1vrq FMNSubunit alpha of sarocosine oxidase / 0.683
1vrq FMNSubunit beta of sarcosine oxidase / 0.683
2ign FADPyranose 2-oxidase / 0.681
4l82 FMNUncharacterized protein / 0.680
1jue FMNDihydroorotate dehydrogenase A (fumarate) 1.3.98.1 0.679
4bby FADAlkyldihydroxyacetonephosphate synthase, peroxisomal 2.5.1.26 0.679
3mkh FADNitroalkane oxidase / 0.678
3oix FMNDihydroorotate dehydrogenase / 0.678
4z9r FMNOmega-3 polyunsaturated fatty acid synthase subunit PfaD / 0.678
2pr5 FMNBlue-light photoreceptor / 0.676
3w8w FADPutative FAD-dependent oxygenase EncM / 0.676
2i51 FMNPyridoxamine 5'-phosphate oxidase-related, FMN-binding / 0.675
4z38 FMNMlnA / 0.673
3esz FMNFlavodoxin / 0.672
4b63 FADL-ornithine N(5)-monooxygenase / 0.672
1djq FMNTrimethylamine dehydrogenase 1.5.8.2 0.669
4ef8 FMNDihydroorotate dehydrogenase (fumarate) / 0.669
1jqi FADShort-chain specific acyl-CoA dehydrogenase, mitochondrial / 0.668
2v18 FMNDodecin / 0.668
5a8a FMNRiboflavin biosynthesis protein RibF 2.7.1.26 0.668
4bc7 FADAlkyldihydroxyacetonephosphate synthase, peroxisomal 2.5.1.26 0.667
1ep1 FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit 1.3.1.14 0.665
2eba FADPutative glutaryl-CoA dehydrogenase / 0.664
2vxa RBFDodecin / 0.663
5a4k FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.662
3nf4 FADAcyl-CoA dehydrogenase domain-containing protein / 0.659
4j8p FMNFlavodoxin / 0.658
1gpe FADGlucose oxidase 1.1.3.4 0.657
4bmo FMNProtein NrdI / 0.657
4qof FMNRibosyldihydronicotinamide dehydrogenase [quinone] / 0.657
4ttc FMNIodotyrosine deiodinase 1 / 0.657
1gox FMNPeroxisomal (S)-2-hydroxy-acid oxidase 1.1.3.15 0.656
1qbg FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.656
2bun FADAppA protein / 0.655
3klb FMNUncharacterized protein / 0.655
2zry FNRIsopentenyl-diphosphate delta-isomerase / 0.654
3qe2 FMNNADPH--cytochrome P450 reductase / 0.653
4mih FADPyranose 2-oxidase 1.1.3.10 0.653
3gg0 FMNUncharacterized protein / 0.652
2zrv FNRIsopentenyl-diphosphate delta-isomerase / 0.651
4b67 FADL-ornithine N(5)-monooxygenase / 0.651
4zoh FADPutative oxidoreductase FAD-binding subunit / 0.650