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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
4hnb FMN LOV protein

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4hnb FMNLOV protein / 1.308
4hj6 FMNLOV protein / 1.100
4hia FMNLOV protein / 1.014
4hj4 FMNLOV protein / 1.013
5j3w FMNSensory box protein / 1.006
4hj3 FMNLOV protein / 0.985
4wuj FMNGlycoside hydrolase family 15, cellulose signaling associated protein envoy / 0.957
2z6c FMNPhototropin-1 2.7.11.1 0.949
5j4e FMNSensory box protein / 0.895
1n9n FMNPutative blue light receptor / 0.891
4r38 RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.887
2pdt FADVivid PAS protein VVD / 0.885
2pd7 FADVivid PAS protein VVD / 0.883
1n9l FMNPutative blue light receptor / 0.861
3hjk FADVivid PAS protein VVD / 0.861
3hji FADVivid PAS protein VVD / 0.857
3d72 FADVivid PAS protein VVD / 0.846
4ees FMNPhototropin-2 2.7.11.1 0.846
4eeu FMNPhototropin-2 2.7.11.1 0.846
2pd8 FADVivid PAS protein VVD / 0.833
3is2 FADVivid PAS protein VVD / 0.808
2pr5 FMNBlue-light photoreceptor / 0.806
4eep FMNPhototropin-2 2.7.11.1 0.795
4eet FMNPhototropin-2 2.7.11.1 0.792
4eer FMNPhototropin-2 2.7.11.1 0.787
2z6d FMNPhototropin-2 2.7.11.1 0.783
3t50 FMNBlue-light-activated histidine kinase 2.7.13.3 0.746
4wf0 FMNNPH1-1 / 0.744
1oon FMNOxygen-insensitive NAD(P)H nitroreductase / 0.735
3sw1 FMNSensory box protein / 0.735
1n07 FMNRiboflavin kinase 2.7.1.26 0.733
2isk FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.728
4hhd FMNPhototropin-1 2.7.11.1 0.726
1yki FMNOxygen-insensitive NAD(P)H nitroreductase / 0.725
4opd FDAConserved Archaeal protein / 0.722
3ue6 FMNAureochrome1 / 0.720
3djl FADPutative acyl-CoA dehydrogenase AidB 1.3.99 0.718
4opc FDAConserved Archaeal protein / 0.717
2wzw FMNNitroreductase NfnB / 0.715
1vfr FMNMajor NAD(P)H-flavin oxidoreductase 1.6.99 0.713
2wzv FMNNitroreductase NfnB / 0.713
4jic FMNGTN Reductase / 0.712
3pl8 FADPyranose 2-oxidase / 0.711
5djt FMNNPH1-2 / 0.709
1icu FMNOxygen-insensitive NAD(P)H nitroreductase / 0.708
1kqc FMNOxygen-insensitive NAD(P)H nitroreductase / 0.707
1oo5 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.707
2mwg FMNBlue-light photoreceptor / 0.707
4tmb FMNOld yellow enzyme / 0.707
1ylu FMNOxygen-insensitive NAD(P)H nitroreductase / 0.706
1kqd FMNOxygen-insensitive NAD(P)H nitroreductase / 0.705
1p0n FMNIsopentenyl-diphosphate delta-isomerase / 0.701
1nec FMNOxygen-insensitive NAD(P)H nitroreductase 1 0.700
3ge6 FMNNitroreductase / 0.697
3n19 FNRXenobiotic reductase / 0.697
4m5p FMNNADPH dehydrogenase / 0.697
1kqb FMNOxygen-insensitive NAD(P)H nitroreductase / 0.695
2gr3 FADFerredoxin reductase / 0.694
3lsh FADPyranose 2-oxidase / 0.694
3x22 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.694
4y9u FADNADPH--cytochrome P450 reductase / 0.693
4yus FMNFamily 3 adenylate cyclase / 0.693
3mpi FADGlutaryl-CoA dehydrogenase 1.3.99.32 0.692
4xoo FMNCoenzyme F420:L-glutamate ligase / 0.691
2a1t FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.686
3tjl FMNNADPH dehydrogenase / 0.685
2cdu FADNADH oxidase / 0.682
4utm FNRXenobiotic reductase / 0.681
1nb9 RBFRiboflavin kinase 2.7.1.26 0.680
1icv FMNOxygen-insensitive NAD(P)H nitroreductase / 0.679
2gqw FADFerredoxin reductase / 0.679
2wet FADTryptophan 5-halogenase / 0.679
2d29 FADAcyl-CoA dehydrogenase / 0.678
4j57 FADThioredoxin reductase 2 1.8.1.9 0.677
2ign FADPyranose 2-oxidase / 0.676
2iyi FMNAppA, antirepressor of ppsR, sensor of blue light / 0.676
4h4u FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.675
4h4v FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.675
4cw5 FMNDfnA / 0.674
1o97 FADElectron transfer flavoprotein subunit alpha / 0.672
4bmo FMNProtein NrdI / 0.672
4kuo RBFPutative blue-light photoreceptor / 0.671
4uth FMNXenobiotic reductase / 0.670
1ooq FMNOxygen-insensitive NAD(P)H nitroreductase / 0.669
2c12 FADNitroalkane oxidase 1.7.3.1 0.669
4u2t FADCholesterol oxidase 1.1.3.6 0.669
1k0j FADp-hydroxybenzoate hydroxylase / 0.668
2pg0 FADAcyl-CoA dehydrogenase / 0.668
3dgz FADThioredoxin reductase 2, mitochondrial 1.8.1.9 0.668
3ic9 FADPutative dihydrolipoamide dehydrogenase / 0.668
3x21 FMNOxygen-insensitive NAD(P)H nitroreductase / 0.668
4wqm FADToluene-4-monooxygenase electron transfer component 1.18.1.3 0.668
5cho FADFlavin reductase / 0.668
3aty FMNProstaglandin F2a synthase / 0.667
2nvk FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.666
3cgc FADCoenzyme A disulfide reductase / 0.665
4h4t FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.665
4kuk RBFPutative blue-light photoreceptor / 0.665
1cc2 FADCholesterol oxidase 1.1.3.6 0.664
2i51 FMNPyridoxamine 5'-phosphate oxidase-related, FMN-binding / 0.664
3cox FADCholesterol oxidase 1.1.3.6 0.664
4h4r FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.664
4h4x FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.664
4rnw FMNNADPH dehydrogenase 1 1.6.99.1 0.664
1ylr FMNOxygen-insensitive NAD(P)H nitroreductase / 0.663
3bem FMNPutative NAD(P)H nitroreductase MhqN 1 0.663
3p7n FMNLight-activated DNA-binding protein EL222 / 0.663
3utg FDAUDP-galactopyranose mutase / 0.663
3gag FMNPutative NADH dehydrogenase NAD(P)H nitroreductase / 0.662
2a1u FADElectron transfer flavoprotein subunit alpha, mitochondrial / 0.661
3u2m FADFAD-linked sulfhydryl oxidase ALR 1.8.3.2 0.661
4u8l FDAUDP-galactopyranose mutase / 0.661
1d7y FADFerredoxin reductase / 0.660
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.660
3gdp FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.660
3uth FDAUDP-galactopyranose mutase / 0.660
4r3a RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.660
1ics FMN12-oxophytodienoate reductase 1 1.3.1.42 0.659
3oib FDAPutative acyl-CoA dehydrogenase / 0.659
4u8k FDAUDP-galactopyranose mutase / 0.659
1tdo FADL-amino-acid oxidase 1.4.3.2 0.658
2ifa FMNUncharacterized protein / 0.658
2qae FADDihydrolipoyl dehydrogenase 1.8.1.4 0.658
5hy5 FADTryptophan 6-halogenase / 0.658
1jr8 FADFAD-linked sulfhydryl oxidase ERV2 1.8.3.2 0.657
2hay FMNPutative NAD(P)H-flavin oxidoreductase / 0.657
3ad9 FADSubunit beta of sarcosine oxidase / 0.657
3clu FADElectron transfer flavoprotein subunit alpha / 0.657
3u5s FADFAD-linked sulfhydryl oxidase ALR 1.8.3.2 0.657
4nmd FDABifunctional protein PutA / 0.656
4qi4 FADCellobiose dehydrogenase / 0.656
3b6d FAECholesterol oxidase 1.1.3.6 0.655
1cbo FADCholesterol oxidase 1.1.3.6 0.654
4qof FMNRibosyldihydronicotinamide dehydrogenase [quinone] / 0.654
5efw FMNNPH1-1 / 0.654
2tpr FADTrypanothione reductase 1.8.1.12 0.653
3n39 FMNProtein NrdI / 0.653
4xwr FADCholesterol oxidase 1.1.3.6 0.653
3dh7 FMNIsopentenyl-diphosphate delta-isomerase / 0.652
3klb FMNUncharacterized protein / 0.652
3vqr FADPutative oxidoreductase / 0.652
4df2 FMNNADPH dehydrogenase / 0.652
1qxo FMNChorismate synthase / 0.651
3mkh FADNitroalkane oxidase / 0.651
4rhe FMNFlavin prenyltransferase UbiX / 0.651
1bwc FADGlutathione reductase, mitochondrial 1.8.1.7 0.650
1ep1 FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit 1.3.1.14 0.650
2fre FMNNAD(P)H-flavin oxidoreductase / 0.650
2pan FADGlyoxylate carboligase 4.1.1.47 0.650
2q3o FMN12-oxophytodienoate reductase 3 1.3.1.42 0.650
3qfc FADNADPH--cytochrome P450 reductase / 0.650
4em3 FADCoenzyme A disulfide reductase / 0.650
5eb5 FAD(R)-mandelonitrile lyase 1 4.1.2.10 0.650