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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
2zrv FNR Isopentenyl-diphosphate delta-isomerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2zrv FNRIsopentenyl-diphosphate delta-isomerase / 1.367
2zry FNRIsopentenyl-diphosphate delta-isomerase / 1.335
3b05 FNRIsopentenyl-diphosphate delta-isomerase / 1.330
3vkj FNRIsopentenyl-diphosphate delta-isomerase / 1.311
2zrz FNRIsopentenyl-diphosphate delta-isomerase / 1.282
3b03 VNRIsopentenyl-diphosphate delta-isomerase / 1.278
3b04 OOPIsopentenyl-diphosphate delta-isomerase / 1.266
2zru FMNIsopentenyl-diphosphate delta-isomerase / 1.228
2zrx FMNIsopentenyl-diphosphate delta-isomerase / 1.183
4uth FMNXenobiotic reductase / 0.820
4utm FNRXenobiotic reductase / 0.815
1djq FMNTrimethylamine dehydrogenase 1.5.8.2 0.811
3l5l FMNXenobiotic reductase / 0.810
2hsa FMN12-oxophytodienoate reductase 3 1.3.1.42 0.800
1vhn FMNtRNA-dihydrouridine synthase / 0.790
4qnw FMNChanoclavine-I aldehyde reductase easA / 0.790
1vcf FMNIsopentenyl-diphosphate delta-isomerase / 0.784
3hgo FMN12-oxophytodienoate reductase 3 1.3.1.42 0.782
4ycp FMNtRNA-dihydrouridine(16) synthase / 0.778
2hs8 FMN12-oxophytodienoate reductase 3 1.3.1.42 0.771
4awt FMNNADH:flavin oxidoreductase Sye1 / 0.768
4tmc FMNOld yellow enzyme / 0.768
1ofe FMNFerredoxin-dependent glutamate synthase 2 1.4.7.1 0.764
1ofd FMNFerredoxin-dependent glutamate synthase 2 1.4.7.1 0.762
1szg FNSCytochrome b2, mitochondrial 1.1.2.3 0.761
2hs6 FMN12-oxophytodienoate reductase 3 1.3.1.42 0.759
5cpm FNRNADH:flavin oxidoreductase / 0.758
2h8x FMNXenA / 0.756
4h6k FMNNADPH dehydrogenase 1 1.6.99.1 0.755
4yco FMNtRNA-dihydrouridine(16) synthase / 0.755
1oyc FMNNADPH dehydrogenase 1 1.6.99.1 0.754
3l67 FMNXenobiotic reductase / 0.754
4utl FNRXenobiotic reductase / 0.751
1z48 FMNNADPH dehydrogenase / 0.749
4jic FMNGTN Reductase / 0.749
2z6i FMN2-nitropropane dioxygenase / 0.747
3hgs FMN12-oxophytodienoate reductase 3 1.3.1.42 0.747
1z41 FMNNADPH dehydrogenase / 0.742
3n19 FNRXenobiotic reductase / 0.741
1h7w FMNDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.739
1z44 FMNNADPH dehydrogenase / 0.737
4aws FMNNADH:flavin oxidoreductase Sye1 / 0.735
2gou FMNNADH:flavin oxidoreductase Sye1 / 0.732
1q45 FMN12-oxophytodienoate reductase 3 1.3.1.42 0.725
4yx6 FMNOmega-3 polyunsaturated fatty acid synthase subunit PfaD / 0.725
1h63 FMNPentaerythritol tetranitrate reductase / 0.721
4xq6 FMNDihydroorotate dehydrogenase (quinone) / 0.719
4utk FNRXenobiotic reductase / 0.714
1gwj FMNMorphinone reductase / 0.709
3kru FMNNADH:flavin oxidoreductase/NADH oxidase / 0.709
4rnv FMNNADPH dehydrogenase 1 1.6.99.1 0.708
4b5n FMNNAD(P)H:flavin oxidoreductase Sye4 / 0.701
1icq FMN12-oxophytodienoate reductase 1 1.3.1.42 0.699
1icp FMN12-oxophytodienoate reductase 1 1.3.1.42 0.694
3aty FMNProstaglandin F2a synthase / 0.694
4bmo FMNProtein NrdI / 0.694
4rnw FMNNADPH dehydrogenase 1 1.6.99.1 0.693
2zfa FMNLactate oxidase / 0.692
1bwl FMNNADPH dehydrogenase 1 1.6.99.1 0.690
4rnx FMNNADPH dehydrogenase 1 1.6.99.1 0.690
3gye FMNDihydroorotate dehydrogenase (fumarate) / 0.689
2gjn FMNNitronate monooxygenase 1.13.12.16 0.686
2nli FMNLactate oxidase / 0.686
4e2b FMNDehydrogenase / 0.680
1ep3 FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit 1.3.1.14 0.678
5dju FMNNPH1-2 / 0.678
2gqa FMNNADH:flavin oxidoreductase Sye1 / 0.677
3atz FMNProstaglandin F2a synthase / 0.677
3p84 FMNPentaerythritol tetranitrate reductase / 0.677
1vyr FMNPentaerythritol tetranitrate reductase / 0.674
3dh7 FMNIsopentenyl-diphosphate delta-isomerase / 0.674
1h50 FMNPentaerythritol tetranitrate reductase / 0.671
3giy FMN(S)-mandelate dehydrogenase 1.1.99.31 0.668
3p82 FMNPentaerythritol tetranitrate reductase / 0.668
4k5r FADOxygenase / 0.668
2bf4 FMNNADPH--cytochrome P450 reductase / 0.667
3oix FMNDihydroorotate dehydrogenase / 0.667
4y9l FADAcyl-CoA dehydrogenase family member 11 / 0.667
3p74 FMNPentaerythritol tetranitrate reductase / 0.666
4zoh FADPutative oxidoreductase FAD-binding subunit / 0.666
1ics FMN12-oxophytodienoate reductase 1 1.3.1.42 0.665
4tmb FMNOld yellow enzyme / 0.665
3p8j FMNPentaerythritol tetranitrate reductase / 0.663
3f03 FMNPentaerythritol tetranitrate reductase / 0.662
3gka FMNN-ethylmaleimide reductase / 0.662
3p62 FMNPentaerythritol tetranitrate reductase / 0.662
4j8p FMNFlavodoxin / 0.662
1ep1 FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit 1.3.1.14 0.660
4dja FAD(6-4) photolyase / 0.659
1iqr FADDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.658
1yob FMNFlavodoxin 2 / 0.658
2j09 FADDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.658
3kyb FADUDP-galactopyranose mutase 5.4.99.9 0.658
4mo2 FDAUDP-galactopyranose mutase / 0.658
3bw4 FMNPutative 2-nitropropane dioxygenase / 0.657
4bby FADAlkyldihydroxyacetonephosphate synthase, peroxisomal 2.5.1.26 0.655
4n82 FMNRibonucleotide reductase (NrdI family protein), putative / 0.654
1vji FMN12-oxophytodienoate reductase 1 1.3.1.42 0.653
3m0o FADMonomeric sarcosine oxidase 1.5.3.1 0.653
4g5q GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.651
4k7y FMNNADPH dehydrogenase 1 1.6.99.1 0.651