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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
4r3a RBF Blue-light-activated histidine kinase 2 2.7.13.3

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4r3a RBFBlue-light-activated histidine kinase 2 2.7.13.3 1.047
4r38 RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.857
4eeu FMNPhototropin-2 2.7.11.1 0.804
2pd8 FADVivid PAS protein VVD / 0.799
2pdt FADVivid PAS protein VVD / 0.793
4eer FMNPhototropin-2 2.7.11.1 0.789
2pd7 FADVivid PAS protein VVD / 0.784
3is2 FADVivid PAS protein VVD / 0.781
4kuk RBFPutative blue-light photoreceptor / 0.780
4kuo RBFPutative blue-light photoreceptor / 0.774
3d72 FADVivid PAS protein VVD / 0.765
4eet FMNPhototropin-2 2.7.11.1 0.761
4eep FMNPhototropin-2 2.7.11.1 0.760
4ees FMNPhototropin-2 2.7.11.1 0.760
3hjk FADVivid PAS protein VVD / 0.759
4hia FMNLOV protein / 0.758
3hji FADVivid PAS protein VVD / 0.752
1n9n FMNPutative blue light receptor / 0.751
4wf0 FMNNPH1-1 / 0.747
2v1a FMNNPH1-1 / 0.743
5efw FMNNPH1-1 / 0.743
5dju FMNNPH1-2 / 0.742
4hj6 FMNLOV protein / 0.738
1n9l FMNPutative blue light receptor / 0.737
5j3w FMNSensory box protein / 0.735
4hj3 FMNLOV protein / 0.734
4wuj FMNGlycoside hydrolase family 15, cellulose signaling associated protein envoy / 0.732
1g28 FMNPHY3 / 0.730
3sw1 FMNSensory box protein / 0.723
2z6d FMNPhototropin-2 2.7.11.1 0.708
3t50 FMNBlue-light-activated histidine kinase 2.7.13.3 0.695
5j4e FMNSensory box protein / 0.695
4wqm FADToluene-4-monooxygenase electron transfer component 1.18.1.3 0.690
3p7n FMNLight-activated DNA-binding protein EL222 / 0.680
2pr5 FMNBlue-light photoreceptor / 0.675
3gfx FMNUncharacterized protein / 0.675
3i99 FADUDP-N-acetylenolpyruvoylglucosamine reductase / 0.674
2i51 FMNPyridoxamine 5'-phosphate oxidase-related, FMN-binding / 0.671
4zoh FADPutative oxidoreductase FAD-binding subunit / 0.671
3sm8 FNKFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.669
2r6h FADNa(+)-translocating NADH-quinone reductase subunit F / 0.667
2ok8 FADFerredoxin--NADP reductase, apicoplast / 0.666
2wet FADTryptophan 5-halogenase / 0.665
1gvh FADFlavohemoprotein / 0.664
2isk FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.662
2q0k FADThioredoxin reductase 1.8.1.9 0.662
3gfz FMNUncharacterized protein / 0.662
1zpt FAD5,10-methylenetetrahydrofolate reductase 1.5.1.20 0.661
3m0o FADMonomeric sarcosine oxidase 1.5.3.1 0.660
4hnb FMNLOV protein / 0.660
2pia FMNPhthalate dioxygenase reductase / 0.659
3m12 FADMonomeric sarcosine oxidase 1.5.3.1 0.658
2du8 FADD-amino-acid oxidase 1.4.3.3 0.657
3aeb FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.657
3sfe FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.657
4rnw FMNNADPH dehydrogenase 1 1.6.99.1 0.657
1cqx FADFlavohemoprotein / 0.656
2nli FMNLactate oxidase / 0.656
3vqr FADPutative oxidoreductase / 0.656
4opg FDAConserved Archaeal protein / 0.656
4dja FAD(6-4) photolyase / 0.655
1gaq FADFerredoxin / 0.654
4opt FDAConserved Archaeal protein / 0.654
2isj FMN5,6-dimethylbenzimidazole synthase 1.13.11.79 0.652
2jkc FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.652
2vxa RBFDodecin / 0.652
2bra FAD[F-actin]-methionine sulfoxide oxidase MICAL1 1.14.13 0.651
2fje FADAdenylylsulfate reductase, subunit A (AprA) / 0.651
2z6c FMNPhototropin-1 2.7.11.1 0.651
4y9l FADAcyl-CoA dehydrogenase family member 11 / 0.651
2iyi FMNAppA, antirepressor of ppsR, sensor of blue light / 0.650
2v0u FMNNPH1-1 / 0.650