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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
1n9n FMN Putative blue light receptor

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1n9n FMNPutative blue light receptor / 1.382
1n9l FMNPutative blue light receptor / 1.227
4eep FMNPhototropin-2 2.7.11.1 1.016
4hia FMNLOV protein / 1.013
5efw FMNNPH1-1 / 1.012
2pr5 FMNBlue-light photoreceptor / 1.009
4hj6 FMNLOV protein / 0.990
4eeu FMNPhototropin-2 2.7.11.1 0.986
4eet FMNPhototropin-2 2.7.11.1 0.979
5dju FMNNPH1-2 / 0.978
4hj3 FMNLOV protein / 0.977
4ees FMNPhototropin-2 2.7.11.1 0.975
5j3w FMNSensory box protein / 0.974
4r38 RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.966
2pdt FADVivid PAS protein VVD / 0.957
2pd7 FADVivid PAS protein VVD / 0.952
3d72 FADVivid PAS protein VVD / 0.950
3hjk FADVivid PAS protein VVD / 0.938
2z6c FMNPhototropin-1 2.7.11.1 0.936
3t50 FMNBlue-light-activated histidine kinase 2.7.13.3 0.932
2v1a FMNNPH1-1 / 0.929
3is2 FADVivid PAS protein VVD / 0.927
4kuk RBFPutative blue-light photoreceptor / 0.926
4eer FMNPhototropin-2 2.7.11.1 0.925
5djt FMNNPH1-2 / 0.924
2pd8 FADVivid PAS protein VVD / 0.920
4wuj FMNGlycoside hydrolase family 15, cellulose signaling associated protein envoy / 0.903
3hji FADVivid PAS protein VVD / 0.902
4hnb FMNLOV protein / 0.891
2v0u FMNNPH1-1 / 0.890
4kuo RBFPutative blue-light photoreceptor / 0.869
4wf0 FMNNPH1-1 / 0.847
3sw1 FMNSensory box protein / 0.844
2z6d FMNPhototropin-2 2.7.11.1 0.823
4hhd FMNPhototropin-1 2.7.11.1 0.823
3ue6 FMNAureochrome1 / 0.800
4hj4 FMNLOV protein / 0.794
3p7n FMNLight-activated DNA-binding protein EL222 / 0.752
4r3a RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.751
1g28 FMNPHY3 / 0.742
2q3o FMN12-oxophytodienoate reductase 3 1.3.1.42 0.717
2bn4 FADNADPH--cytochrome P450 reductase / 0.709
2gmh FADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial 1.5.5.1 0.706
3gka FMNN-ethylmaleimide reductase / 0.705
4opl FDAConserved Archaeal protein / 0.705
5j4e FMNSensory box protein / 0.705
1cc2 FADCholesterol oxidase 1.1.3.6 0.703
2fzn FADBifunctional protein PutA 1.5.5.2 0.703
4yus FMNFamily 3 adenylate cyclase / 0.703
1jeh FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.701
1i0s FMNFerric-chelate reductase (NAD(P)H) / 0.699
1b4v FADCholesterol oxidase 1.1.3.6 0.692
2ohj FMNType A flavoprotein FprA 1 0.691
3ad9 FADSubunit beta of sarcosine oxidase / 0.689
3haz FADBifunctional protein PutA / 0.688
1b8s FADCholesterol oxidase 1.1.3.6 0.687
4u2s FDACholesterol oxidase 1.1.3.6 0.687
4rek FADCholesterol oxidase 1.1.3.6 0.685
2g37 FADProline dehydrogenase / 0.684
3gyj FADCholesterol oxidase 1.1.3.6 0.684
2yqu FADDihydrolipoyl dehydrogenase / 0.683
1efv FADElectron transfer flavoprotein subunit alpha, mitochondrial / 0.681
4gdp FADPolyamine oxidase FMS1 / 0.681
1n4u FAECholesterol oxidase 1.1.3.6 0.680
2gew FADCholesterol oxidase 1.1.3.6 0.680
2gr3 FADFerredoxin reductase / 0.679
2mwg FMNBlue-light photoreceptor / 0.679
4opu FDAConserved Archaeal protein / 0.678
4xwr FADCholesterol oxidase 1.1.3.6 0.678
3f03 FMNPentaerythritol tetranitrate reductase / 0.676
2iyi FMNAppA, antirepressor of ppsR, sensor of blue light / 0.675
3cox FADCholesterol oxidase 1.1.3.6 0.675
1cbo FADCholesterol oxidase 1.1.3.6 0.674
4qi7 FADCellobiose dehydrogenase / 0.674
1v59 FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.673
2a1u FADElectron transfer flavoprotein subunit alpha, mitochondrial / 0.673
2gqw FADFerredoxin reductase / 0.673
3ept FDAPutative FAD-monooxygenase / 0.673
4h4t FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.673
4h4x FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.673
2wzv FMNNitroreductase NfnB / 0.672
4udq FAD5-(hydroxymethyl)furfural oxidase / 0.672
2j09 FMNDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.671
1h83 FADPolyamine oxidase 1.5.3.14 0.670
1vdc FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.670
4qnw FMNChanoclavine-I aldehyde reductase easA / 0.669
4zoh FADPutative oxidoreductase FAD-binding subunit / 0.669
1tdk FADL-amino-acid oxidase 1.4.3.2 0.667
1tdn FADL-amino-acid oxidase 1.4.3.2 0.667
3gag FMNPutative NADH dehydrogenase NAD(P)H nitroreductase / 0.666
3p62 FMNPentaerythritol tetranitrate reductase / 0.666
3rup ADPBiotin carboxylase 6.3.4.14 0.665
4h4v FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.665
1zmd FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.664
2isk FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.664
3cnd FADPolyamine oxidase FMS1 / 0.664
3gfx FMNUncharacterized protein / 0.664
4nev FADTrypanothione reductase / 0.664
1pkv RBFRiboflavin synthase 2.5.1.9 0.662
2iid FADL-amino-acid oxidase 1.4.3.2 0.662
4m52 FADDihydrolipoyl dehydrogenase 1.8.1.4 0.662
2eq7 FADDihydrolipoyl dehydrogenase / 0.661
1v93 FADMethylenetetrahydrofolate reductase / 0.660
4wqm FADToluene-4-monooxygenase electron transfer component 1.18.1.3 0.660
1h7w FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.659
1zx9 FADMercuric reductase 1.16.1.1 0.659
2y6p CTP3-deoxy-manno-octulosonate cytidylyltransferase 2.7.7.38 0.659
3rnm FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.659
1yrx FMNAppA protein / 0.658
3all FAD2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase / 0.658
1zmc FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.657
4q73 FADBifunctional protein PutA / 0.657
4y7c FADNADPH--cytochrome P450 reductase / 0.655
3kpf FADPolyamine oxidase 1.5.3.14 0.654
3qe2 FADNADPH--cytochrome P450 reductase / 0.654
3wg6 NDPNADPH-dependent conjugated polyketone reductase C1 / 0.654
2gh5 FADGlutathione reductase, mitochondrial 1.8.1.7 0.653
2qcu FADAerobic glycerol-3-phosphate dehydrogenase 1.1.5.3 0.653
3sqp FADGlutathione reductase, mitochondrial 1.8.1.7 0.653
1gth FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.652
2jae FADL-amino acid oxidase / 0.652
3u2l FADFAD-linked sulfhydryl oxidase ALR 1.8.3.2 0.652
3f8d FADNADH oxidase/thioredoxin reductase / 0.651
1ebd FADDihydrolipoyl dehydrogenase 1.8.1.4 0.650
1s4m LUMRiboflavin biosynthesis protein / 0.650
3g5m FADRibosyldihydronicotinamide dehydrogenase [quinone] / 0.650
5ez7 FADProbable FAD-dependent oxidoreductase PA4991 / 0.650