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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
2vxa RBF Dodecin

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2vxa RBFDodecin / 1.002
2v18 FMNDodecin / 0.862
2v19 FMNDodecin / 0.754
2vyx FMNDodecin / 0.715
4kuk RBFPutative blue-light photoreceptor / 0.685
3ue6 FMNAureochrome1 / 0.682
1n9l FMNPutative blue light receptor / 0.680
4kuo RBFPutative blue-light photoreceptor / 0.678
1jqi FADShort-chain specific acyl-CoA dehydrogenase, mitochondrial / 0.677
2q3o FMN12-oxophytodienoate reductase 3 1.3.1.42 0.676
4bf9 FMNtRNA-dihydrouridine(16) synthase / 0.672
2h8x FMNXenA / 0.671
2z6d FMNPhototropin-2 2.7.11.1 0.671
2v5u FMNFlavodoxin / 0.670
3l5l FMNXenobiotic reductase / 0.669
4qnw FMNChanoclavine-I aldehyde reductase easA / 0.668
4rnw FMNNADPH dehydrogenase 1 1.6.99.1 0.666
4eep FMNPhototropin-2 2.7.11.1 0.665
4h6k FMNNADPH dehydrogenase 1 1.6.99.1 0.665
5jsc FADPutative acyl-CoA dehydrogenase / 0.665
4hj4 FMNLOV protein / 0.664
4tmb FMNOld yellow enzyme / 0.664
4k7y FMNNADPH dehydrogenase 1 1.6.99.1 0.663
1tj0 FADBifunctional protein PutA 1.5.5.2 0.662
3mpi FADGlutaryl-CoA dehydrogenase 1.3.99.32 0.661
1icq FMN12-oxophytodienoate reductase 1 1.3.1.42 0.660
4qof FMNRibosyldihydronicotinamide dehydrogenase [quinone] / 0.660
5a8a FMNRiboflavin biosynthesis protein RibF 2.7.1.26 0.660
1z44 FMNNADPH dehydrogenase / 0.659
2djl FMNDihydroorotate dehydrogenase (fumarate) 1.3.98.1 0.659
1oyc FMNNADPH dehydrogenase 1 1.6.99.1 0.658
4rnx FMNNADPH dehydrogenase 1 1.6.99.1 0.658
1z48 FMNNADPH dehydrogenase / 0.657
3e4v FMNUncharacterized protein / 0.657
3hjk FADVivid PAS protein VVD / 0.657
1bwk FMNNADPH dehydrogenase 1 1.6.99.1 0.656
1vji FMN12-oxophytodienoate reductase 1 1.3.1.42 0.656
2gou FMNNADH:flavin oxidoreductase Sye1 / 0.656
3hf3 FMNChromate reductase / 0.656
5ebu FMNLactate oxidase / 0.656
2g37 FADProline dehydrogenase / 0.655
2z6c FMNPhototropin-1 2.7.11.1 0.655
3gg1 FMNUncharacterized protein / 0.655
3hgo FMN12-oxophytodienoate reductase 3 1.3.1.42 0.655
1bwl FMNNADPH dehydrogenase 1 1.6.99.1 0.654
1own FADDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.654
3fst FAD5,10-methylenetetrahydrofolate reductase 1.5.1.20 0.654
3mdd FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.654
1kyv RBF6,7-dimethyl-8-ribityllumazine synthase 2.5.1.78 0.653
2du2 FMNLactate oxidase / 0.653
3p7n FMNLight-activated DNA-binding protein EL222 / 0.653
3qfr FMNNADPH--cytochrome P450 reductase / 0.653
4r3a RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.652
4utm FNRXenobiotic reductase / 0.652
2pg0 FADAcyl-CoA dehydrogenase / 0.651
4e2b FMNDehydrogenase / 0.651
2yg7 FADPutrescine oxidase / 0.650
3gfy FMNUncharacterized protein / 0.650
4awt FMNNADH:flavin oxidoreductase Sye1 / 0.650