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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
4tmc FMN Old yellow enzyme

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4tmc FMNOld yellow enzyme / 1.332
4k7y FMNNADPH dehydrogenase 1 1.6.99.1 1.263
4rnx FMNNADPH dehydrogenase 1 1.6.99.1 1.262
4h6k FMNNADPH dehydrogenase 1 1.6.99.1 1.235
1oya FMNNADPH dehydrogenase 1 1.6.99.1 1.214
1bwk FMNNADPH dehydrogenase 1 1.6.99.1 1.208
4tmb FMNOld yellow enzyme / 1.135
1oyc FMNNADPH dehydrogenase 1 1.6.99.1 1.124
1gwj FMNMorphinone reductase / 1.121
3tjl FMNNADPH dehydrogenase / 1.110
4df2 FMNNADPH dehydrogenase / 1.096
4m5p FMNNADPH dehydrogenase / 1.081
4b5n FMNNAD(P)H:flavin oxidoreductase Sye4 / 1.077
1h50 FMNPentaerythritol tetranitrate reductase / 1.053
1h63 FMNPentaerythritol tetranitrate reductase / 1.053
1icq FMN12-oxophytodienoate reductase 1 1.3.1.42 1.032
1h51 FMNPentaerythritol tetranitrate reductase / 1.029
2abb FMNPentaerythritol tetranitrate reductase / 1.015
3hgr FMN12-oxophytodienoate reductase 1 1.3.1.42 1.010
4awt FMNNADH:flavin oxidoreductase Sye1 / 1.009
1vji FMN12-oxophytodienoate reductase 1 1.3.1.42 1.000
3p84 FMNPentaerythritol tetranitrate reductase / 0.998
3p8i FMNPentaerythritol tetranitrate reductase / 0.996
1bwl FMNNADPH dehydrogenase 1 1.6.99.1 0.992
4aws FMNNADH:flavin oxidoreductase Sye1 / 0.991
4rnw FMNNADPH dehydrogenase 1 1.6.99.1 0.989
3atz FMNProstaglandin F2a synthase / 0.985
3p67 FMNPentaerythritol tetranitrate reductase / 0.985
1vyr FMNPentaerythritol tetranitrate reductase / 0.977
4rnv FMNNADPH dehydrogenase 1 1.6.99.1 0.976
3aty FMNProstaglandin F2a synthase / 0.971
3f03 FMNPentaerythritol tetranitrate reductase / 0.968
3p8j FMNPentaerythritol tetranitrate reductase / 0.968
1ics FMN12-oxophytodienoate reductase 1 1.3.1.42 0.963
4e2b FMNDehydrogenase / 0.952
4jic FMNGTN Reductase / 0.948
3p62 FMNPentaerythritol tetranitrate reductase / 0.943
3p74 FMNPentaerythritol tetranitrate reductase / 0.942
3gka FMNN-ethylmaleimide reductase / 0.933
4utl FNRXenobiotic reductase / 0.933
3p82 FMNPentaerythritol tetranitrate reductase / 0.932
2h8x FMNXenA / 0.930
3l5l FMNXenobiotic reductase / 0.929
4utm FNRXenobiotic reductase / 0.926
4uth FMNXenobiotic reductase / 0.922
3kru FMNNADH:flavin oxidoreductase/NADH oxidase / 0.913
1icp FMN12-oxophytodienoate reductase 1 1.3.1.42 0.910
3l67 FMNXenobiotic reductase / 0.909
4e2d FMNDehydrogenase / 0.907
4utk FNRXenobiotic reductase / 0.907
1z41 FMNNADPH dehydrogenase / 0.905
2hs6 FMN12-oxophytodienoate reductase 3 1.3.1.42 0.897
3hgs FMN12-oxophytodienoate reductase 3 1.3.1.42 0.892
2hs8 FMN12-oxophytodienoate reductase 3 1.3.1.42 0.890
1z44 FMNNADPH dehydrogenase / 0.889
1z48 FMNNADPH dehydrogenase / 0.889
4qnw FMNChanoclavine-I aldehyde reductase easA / 0.889
3n14 FMNXenobiotic reductase / 0.887
4xq6 FMNDihydroorotate dehydrogenase (quinone) / 0.871
2hsa FMN12-oxophytodienoate reductase 3 1.3.1.42 0.861
2djx FMNDihydroorotate dehydrogenase (fumarate) 1.3.98.1 0.860
1k02 FMNNADPH dehydrogenase 1 1.6.99.1 0.857
2q3r FMN12-oxophytodienoate reductase 1 1.3.1.42 0.854
3n19 FNRXenobiotic reductase / 0.852
1jub FMNDihydroorotate dehydrogenase A (fumarate) 1.3.98.1 0.846
1q45 FMN12-oxophytodienoate reductase 3 1.3.1.42 0.842
2djl FMNDihydroorotate dehydrogenase (fumarate) 1.3.98.1 0.841
4a3u FMNNADH:flavin oxidoreductase/NADH oxidase / 0.840
4yco FMNtRNA-dihydrouridine(16) synthase / 0.839
1uum FMNDihydroorotate dehydrogenase (quinone), mitochondrial 1.3.5.2 0.833
3hf3 FMNChromate reductase / 0.831
1jue FMNDihydroorotate dehydrogenase A (fumarate) 1.3.98.1 0.828
1vhn FMNtRNA-dihydrouridine synthase / 0.824
5cpm FNRNADH:flavin oxidoreductase / 0.821
4rnu FMNNADPH dehydrogenase 1 1.6.99.1 0.818
3gr8 FMNNADPH dehydrogenase / 0.799
2zru FMNIsopentenyl-diphosphate delta-isomerase / 0.797
2gou FMNNADH:flavin oxidoreductase Sye1 / 0.796
2j6x FMNLactate oxidase / 0.796
4ycp FMNtRNA-dihydrouridine(16) synthase / 0.793
4qai FMNNADPH dehydrogenase / 0.774
4bf9 FMNtRNA-dihydrouridine(16) synthase / 0.772
1h7w FMNDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.771
2zrv FNRIsopentenyl-diphosphate delta-isomerase / 0.768
1dor FMNDihydroorotate dehydrogenase A (fumarate) 1.3.98.1 0.758
3vkj FNRIsopentenyl-diphosphate delta-isomerase / 0.750
2gqa FMNNADH:flavin oxidoreductase Sye1 / 0.737
2zry FNRIsopentenyl-diphosphate delta-isomerase / 0.734
5ebu FMNLactate oxidase / 0.731
1djq FMNTrimethylamine dehydrogenase 1.5.8.2 0.725
4ttc FMNIodotyrosine deiodinase 1 / 0.719
3giy FMN(S)-mandelate dehydrogenase 1.1.99.31 0.718
2zrz FNRIsopentenyl-diphosphate delta-isomerase / 0.716
4yx6 FMNOmega-3 polyunsaturated fatty acid synthase subunit PfaD / 0.711
1vcf FMNIsopentenyl-diphosphate delta-isomerase / 0.705
3gye FMNDihydroorotate dehydrogenase (fumarate) / 0.704
3b04 OOPIsopentenyl-diphosphate delta-isomerase / 0.702
1d4a FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.698
1kbq FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.698
2i51 FMNPyridoxamine 5'-phosphate oxidase-related, FMN-binding / 0.697
4zoh FADPutative oxidoreductase FAD-binding subunit / 0.697
3gfd FMNIodotyrosine deiodinase 1 1.21.1.1 0.694
4cw5 FMNDfnA / 0.694
3c3n FMNDihydroorotate dehydrogenase (fumarate) 1.3.98.1 0.693
3oix FMNDihydroorotate dehydrogenase / 0.687
1ep3 FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit 1.3.1.14 0.686
2ign FADPyranose 2-oxidase / 0.684
1h66 FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.683
5a4k FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.683
1ep1 FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit 1.3.1.14 0.681
1jqi FADShort-chain specific acyl-CoA dehydrogenase, mitochondrial / 0.680
1kbo FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.680
1dxo FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.679
2a1t FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.679
1dxq FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.678
4bby FADAlkyldihydroxyacetonephosphate synthase, peroxisomal 2.5.1.26 0.678
4z38 FMNMlnA / 0.677
2igo FADPyranose 2-oxidase / 0.674
4j8p FMNFlavodoxin / 0.673
2yg3 FADPutrescine oxidase / 0.672
2zfa FMNLactate oxidase / 0.672
4rje FNRLactate oxidase / 0.672
3w77 FMNFMN-dependent NADH-azoreductase / 0.671
1yrx FMNAppA protein / 0.668
2nli FMNLactate oxidase / 0.668
2e77 FMNLactate oxidase / 0.664
1jeh FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.661
1kbj FMNCytochrome b2, mitochondrial 1.1.2.3 0.661
5a8a FMNRiboflavin biosynthesis protein RibF 2.7.1.26 0.659
2dvl FADAcyl-CoA dehydrogenase / 0.658
2vi5 Y196,7-dimethyl-8-ribityllumazine synthase 2.5.1.78 0.658
2a58 RBF6,7-dimethyl-8-ribityllumazine synthase 2.5.1.78 0.657
2isj FMN5,6-dimethylbenzimidazole synthase 1.13.11.79 0.657
3hgo FMN12-oxophytodienoate reductase 3 1.3.1.42 0.657
1ebd FADDihydrolipoyl dehydrogenase 1.8.1.4 0.656
3k4n FADPyranose 2-oxidase / 0.656
1kbi FMNCytochrome b2, mitochondrial 1.1.2.3 0.654
2hfn FMNActivator of photopigment and puc expression / 0.654
1ps9 FAD2,4-dienoyl-CoA reductase 1.3.1.34 0.653
2isl FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.653
2z9d FMNFMN-dependent NADH-azoreductase / 0.653
3n39 FMNProtein NrdI / 0.653
4gus FADLysine-specific histone demethylase 1B 1 0.653
3fcj FADNitroalkane oxidase 1.7.3.1 0.652
1gg5 FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.651
2q3o FMN12-oxophytodienoate reductase 3 1.3.1.42 0.651
1f0x FADD-lactate dehydrogenase 1.1.1.28 0.650
1qbg FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.650
1r2j FADFkbI / 0.650
3rha FDAPutrescine oxidase / 0.650