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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
2zry FNR Isopentenyl-diphosphate delta-isomerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2zry FNRIsopentenyl-diphosphate delta-isomerase / 1.415
3b05 FNRIsopentenyl-diphosphate delta-isomerase / 1.346
2zrv FNRIsopentenyl-diphosphate delta-isomerase / 1.335
3b03 VNRIsopentenyl-diphosphate delta-isomerase / 1.316
2zrz FNRIsopentenyl-diphosphate delta-isomerase / 1.299
2zru FMNIsopentenyl-diphosphate delta-isomerase / 1.295
3vkj FNRIsopentenyl-diphosphate delta-isomerase / 1.287
3b04 OOPIsopentenyl-diphosphate delta-isomerase / 1.263
2zrx FMNIsopentenyl-diphosphate delta-isomerase / 1.216
2hsa FMN12-oxophytodienoate reductase 3 1.3.1.42 0.793
4ycp FMNtRNA-dihydrouridine(16) synthase / 0.788
3l67 FMNXenobiotic reductase / 0.782
4utm FNRXenobiotic reductase / 0.781
1vhn FMNtRNA-dihydrouridine synthase / 0.780
2h8x FMNXenA / 0.778
1h7w FMNDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.776
1kbj FMNCytochrome b2, mitochondrial 1.1.2.3 0.776
3hgo FMN12-oxophytodienoate reductase 3 1.3.1.42 0.775
2gou FMNNADH:flavin oxidoreductase Sye1 / 0.774
1z41 FMNNADPH dehydrogenase / 0.773
4yco FMNtRNA-dihydrouridine(16) synthase / 0.768
3l5l FMNXenobiotic reductase / 0.757
3p8j FMNPentaerythritol tetranitrate reductase / 0.755
5cpm FNRNADH:flavin oxidoreductase / 0.754
1vcf FMNIsopentenyl-diphosphate delta-isomerase / 0.752
1z48 FMNNADPH dehydrogenase / 0.751
3gye FMNDihydroorotate dehydrogenase (fumarate) / 0.751
4qnw FMNChanoclavine-I aldehyde reductase easA / 0.749
1ep3 FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit 1.3.1.14 0.743
3hgs FMN12-oxophytodienoate reductase 3 1.3.1.42 0.743
1q45 FMN12-oxophytodienoate reductase 3 1.3.1.42 0.740
2hs6 FMN12-oxophytodienoate reductase 3 1.3.1.42 0.740
4utk FNRXenobiotic reductase / 0.740
4tmc FMNOld yellow enzyme / 0.734
2hs8 FMN12-oxophytodienoate reductase 3 1.3.1.42 0.731
3n19 FNRXenobiotic reductase / 0.731
3p84 FMNPentaerythritol tetranitrate reductase / 0.731
1ofe FMNFerredoxin-dependent glutamate synthase 2 1.4.7.1 0.730
4b5n FMNNAD(P)H:flavin oxidoreductase Sye4 / 0.730
4utl FNRXenobiotic reductase / 0.725
4z38 FMNMlnA / 0.724
4awt FMNNADH:flavin oxidoreductase Sye1 / 0.721
1ofd FMNFerredoxin-dependent glutamate synthase 2 1.4.7.1 0.720
4jic FMNGTN Reductase / 0.718
1gwj FMNMorphinone reductase / 0.716
4aws FMNNADH:flavin oxidoreductase Sye1 / 0.713
4tmb FMNOld yellow enzyme / 0.712
1icq FMN12-oxophytodienoate reductase 1 1.3.1.42 0.709
1ep1 FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit 1.3.1.14 0.704
4bmo FMNProtein NrdI / 0.704
1llw FMNFerredoxin-dependent glutamate synthase 2 1.4.7.1 0.702
4xq6 FMNDihydroorotate dehydrogenase (quinone) / 0.701
4ttc FMNIodotyrosine deiodinase 1 / 0.698
1oya FMNNADPH dehydrogenase 1 1.6.99.1 0.696
1uum FMNDihydroorotate dehydrogenase (quinone), mitochondrial 1.3.5.2 0.696
3aty FMNProstaglandin F2a synthase / 0.696
3atz FMNProstaglandin F2a synthase / 0.695
4rnx FMNNADPH dehydrogenase 1 1.6.99.1 0.695
1z44 FMNNADPH dehydrogenase / 0.694
1oyc FMNNADPH dehydrogenase 1 1.6.99.1 0.693
1kbo FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.690
4h6k FMNNADPH dehydrogenase 1 1.6.99.1 0.690
1dxo FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.689
3p8i FMNPentaerythritol tetranitrate reductase / 0.689
1wam FADUDP-galactopyranose mutase 5.4.99.9 0.685
5dju FMNNPH1-2 / 0.683
2bi8 FADUDP-galactopyranose mutase 5.4.99.9 0.682
4hms FMNPhenazine biosynthesis protein PhzG 1.4 0.682
4uth FMNXenobiotic reductase / 0.680
3hf3 FMNChromate reductase / 0.678
4nmc FADBifunctional protein PutA / 0.678
1yki FMNOxygen-insensitive NAD(P)H nitroreductase / 0.676
2gqa FMNNADH:flavin oxidoreductase Sye1 / 0.676
3gfd FMNIodotyrosine deiodinase 1 1.21.1.1 0.676
3gka FMNN-ethylmaleimide reductase / 0.676
1icp FMN12-oxophytodienoate reductase 1 1.3.1.42 0.675
4rnv FMNNADPH dehydrogenase 1 1.6.99.1 0.675
1qcw FNSCytochrome b2, mitochondrial 1.1.2.3 0.673
3dh7 FMNIsopentenyl-diphosphate delta-isomerase / 0.672
1qbg FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.671
1vyr FMNPentaerythritol tetranitrate reductase / 0.671
4e2b FMNDehydrogenase / 0.670
4n82 FMNRibonucleotide reductase (NrdI family protein), putative / 0.670
1jue FMNDihydroorotate dehydrogenase A (fumarate) 1.3.98.1 0.668
4k5r FADOxygenase / 0.667
4wzh FMNDihydroorotate dehydrogenase (fumarate) / 0.667
1ics FMN12-oxophytodienoate reductase 1 1.3.1.42 0.664
3hgr FMN12-oxophytodienoate reductase 1 1.3.1.42 0.664
3kve FADL-amino-acid oxidase / 0.664
3p62 FMNPentaerythritol tetranitrate reductase / 0.664
3tjl FMNNADPH dehydrogenase / 0.664
4u8i FDAUDP-galactopyranose mutase / 0.664
3cnt FADPolyamine oxidase FMS1 / 0.663
3p74 FMNPentaerythritol tetranitrate reductase / 0.663
1vji FMN12-oxophytodienoate reductase 1 1.3.1.42 0.662
3e4v FMNUncharacterized protein / 0.661
1ylu FMNOxygen-insensitive NAD(P)H nitroreductase / 0.660
1h50 FMNPentaerythritol tetranitrate reductase / 0.659
1oon FMNOxygen-insensitive NAD(P)H nitroreductase / 0.659
2zfa FMNLactate oxidase / 0.659
4df2 FMNNADPH dehydrogenase / 0.659
4r38 RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.659
3bw3 FMNPutative 2-nitropropane dioxygenase / 0.658
4hia FMNLOV protein / 0.658
1h63 FMNPentaerythritol tetranitrate reductase / 0.656
2abb FMNPentaerythritol tetranitrate reductase / 0.656
3kru FMNNADH:flavin oxidoreductase/NADH oxidase / 0.656
3r3s NADPutative oxidoreductase / 0.656
3p7n FMNLight-activated DNA-binding protein EL222 / 0.655
3f03 FMNPentaerythritol tetranitrate reductase / 0.654
3f90 FMNFlavodoxin / 0.654
4k7y FMNNADPH dehydrogenase 1 1.6.99.1 0.654
2e77 FMNLactate oxidase / 0.653
1oo5 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.651
2yvj FADFerredoxin reductase / 0.650
3bw2 FMNPutative 2-nitropropane dioxygenase / 0.650
3haz FADBifunctional protein PutA / 0.650
4lwp SAHArginine N-methyltransferase, putative / 0.650
4y9l FADAcyl-CoA dehydrogenase family member 11 / 0.650