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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
3of4 FMN Nitroreductase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3of4 FMNNitroreductase / 1.205
1oo5 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.978
1oon FMNOxygen-insensitive NAD(P)H nitroreductase / 0.961
3x22 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.942
2wzw FMNNitroreductase NfnB / 0.924
1icu FMNOxygen-insensitive NAD(P)H nitroreductase / 0.923
2wzv FMNNitroreductase NfnB / 0.911
1icv FMNOxygen-insensitive NAD(P)H nitroreductase / 0.894
1ooq FMNOxygen-insensitive NAD(P)H nitroreductase / 0.891
1ylu FMNOxygen-insensitive NAD(P)H nitroreductase / 0.887
1ylr FMNOxygen-insensitive NAD(P)H nitroreductase / 0.880
1nec FMNOxygen-insensitive NAD(P)H nitroreductase 1 0.877
1kqd FMNOxygen-insensitive NAD(P)H nitroreductase / 0.874
1yki FMNOxygen-insensitive NAD(P)H nitroreductase / 0.870
1ds7 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.868
3qdl FMNOxygen-insensitive NADPH nitroreductase / 0.867
2hay FMNPutative NAD(P)H-flavin oxidoreductase / 0.856
1kqb FMNOxygen-insensitive NAD(P)H nitroreductase / 0.854
1kqc FMNOxygen-insensitive NAD(P)H nitroreductase / 0.852
3koq FMNPutative nitroreductase / 0.834
3gag FMNPutative NADH dehydrogenase NAD(P)H nitroreductase / 0.832
3x21 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.810
1vfr FMNMajor NAD(P)H-flavin oxidoreductase 1.6.99 0.790
3bem FMNPutative NAD(P)H nitroreductase MhqN 1 0.752
3pxv FMNNitroreductase / 0.746
4ttc FMNIodotyrosine deiodinase 1 / 0.732
2fre FMNNAD(P)H-flavin oxidoreductase / 0.726
3gh8 FMNIodotyrosine deiodinase 1 1.21.1.1 0.726
3e39 FMNNitroreductase / 0.723
3eo8 FMNPutative nitroreductase / 0.711
5eb5 FAD(R)-mandelonitrile lyase 1 4.1.2.10 0.705
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.699
5li5 THR_ALA_ASN_PRO_SEPKLTH0G14146p / 0.694
3hj9 FMNUncharacterized protein / 0.692
3gdp FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.691
3e4v FMNUncharacterized protein / 0.686
3ge6 FMNNitroreductase / 0.685
4xoo FMNCoenzyme F420:L-glutamate ligase / 0.675
2bkj FMNNADPH-flavin oxidoreductase / 0.670
3gfd FMNIodotyrosine deiodinase 1 1.21.1.1 0.670
3u33 FADPutative acyl-CoA dehydrogenase AidB 1.3.99 0.670
4eep FMNPhototropin-2 2.7.11.1 0.669
4eo3 FMNBacterioferritin comigratory protein/NADH dehydrogenase / 0.669
4pk4 ADPUnconventional myosin-VI / 0.667
4pyt FADUDP-N-acetylenolpyruvoylglucosamine reductase / 0.666
4ttb FMNIodotyrosine deiodinase 1 / 0.666
2i51 FMNPyridoxamine 5'-phosphate oxidase-related, FMN-binding / 0.665
1i0s FMNFerric-chelate reductase (NAD(P)H) / 0.664
2ard FDAFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.664
4wqm FADToluene-4-monooxygenase electron transfer component 1.18.1.3 0.664
3a3b RBFLumazine protein / 0.661
4qly FMNEnone reductase CLA-ER / 0.661
3sm8 FNKFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.656
4z43 FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.655
1t6z RBFRiboflavin biosynthesis protein / 0.654
2i02 FMNPyridoxamine 5'-phosphate oxidase-related, FMN-binding / 0.654
2opm NI9Farnesyl pyrophosphate synthase 2.5.1.10 0.654
3up5 FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase 1.14.13.160 0.654
1qlt FADVanillyl-alcohol oxidase 1.1.3.38 0.652
1tj1 FADBifunctional protein PutA 1.5.5.2 0.652
2byc FMNBlue-light receptor of the BLUF-family / 0.652
4eer FMNPhototropin-2 2.7.11.1 0.652