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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
5dju FMN NPH1-2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5dju FMNNPH1-2 / 1.194
5djt FMNNPH1-2 / 1.130
2v0u FMNNPH1-1 / 1.096
5efw FMNNPH1-1 / 1.085
2v1a FMNNPH1-1 / 1.066
4eet FMNPhototropin-2 2.7.11.1 1.042
3t50 FMNBlue-light-activated histidine kinase 2.7.13.3 1.024
4wuj FMNGlycoside hydrolase family 15, cellulose signaling associated protein envoy / 1.019
4eep FMNPhototropin-2 2.7.11.1 1.009
4ees FMNPhototropin-2 2.7.11.1 1.009
1n9l FMNPutative blue light receptor / 0.994
2z6d FMNPhototropin-2 2.7.11.1 0.994
1n9n FMNPutative blue light receptor / 0.978
4eer FMNPhototropin-2 2.7.11.1 0.965
4wf0 FMNNPH1-1 / 0.962
3hji FADVivid PAS protein VVD / 0.948
3d72 FADVivid PAS protein VVD / 0.940
2pdt FADVivid PAS protein VVD / 0.907
3ue6 FMNAureochrome1 / 0.907
3hjk FADVivid PAS protein VVD / 0.898
4hj6 FMNLOV protein / 0.885
2pd8 FADVivid PAS protein VVD / 0.884
2pd7 FADVivid PAS protein VVD / 0.880
2pr5 FMNBlue-light photoreceptor / 0.857
4hhd FMNPhototropin-1 2.7.11.1 0.855
3is2 FADVivid PAS protein VVD / 0.831
3sw1 FMNSensory box protein / 0.829
4eeu FMNPhototropin-2 2.7.11.1 0.822
4hia FMNLOV protein / 0.810
1g28 FMNPHY3 / 0.788
2z6c FMNPhototropin-1 2.7.11.1 0.782
5j3w FMNSensory box protein / 0.750
4kuk RBFPutative blue-light photoreceptor / 0.746
4hj4 FMNLOV protein / 0.743
4r3a RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.742
4kuo RBFPutative blue-light photoreceptor / 0.740
5dkk FMNPredicted protein / 0.723
3p7n FMNLight-activated DNA-binding protein EL222 / 0.718
4r38 RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.714
5j4e FMNSensory box protein / 0.714
4rsl FADFructosyl peptide oxidase / 0.692
4hj3 FMNLOV protein / 0.691
1tde FADThioredoxin reductase 1.8.1.9 0.683
2zry FNRIsopentenyl-diphosphate delta-isomerase / 0.683
4ntd FADThioredoxin reductase / 0.682
2zrv FNRIsopentenyl-diphosphate delta-isomerase / 0.678
1ffu FADCarbon monoxide dehydrogenase medium chain / 0.674
2isj FMN5,6-dimethylbenzimidazole synthase 1.13.11.79 0.674
4m52 FADDihydrolipoyl dehydrogenase 1.8.1.4 0.672
1cc2 FADCholesterol oxidase 1.1.3.6 0.667
2c4c FAD[F-actin]-methionine sulfoxide oxidase MICAL1 1.14.13 0.667
3int FDAUDP-galactopyranose mutase 5.4.99.9 0.667
4d5g FADCyclohexane-1,2-dione hydrolase 3.7.1.11 0.664
4zoh FADPutative oxidoreductase FAD-binding subunit / 0.664
3ust FADAcMNPV orf92 / 0.663
3ish FADThioredoxin reductase 1.8.1.9 0.660
5kbw RBFRiboflavin transporter RibU / 0.659
1tdf FADThioredoxin reductase 1.8.1.9 0.658
2gj3 FADNitrogen fixation regulatory protein 2.7.13.3 0.658
4bk3 FADProbable salicylate monooxygenase / 0.658
3vkj FNRIsopentenyl-diphosphate delta-isomerase / 0.656
2qae FADDihydrolipoyl dehydrogenase 1.8.1.4 0.654
3sfd FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.654
3sm8 FNKFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.652
4aws FMNNADH:flavin oxidoreductase Sye1 / 0.652
2gmj FADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial 1.5.5.1 0.651