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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
1nb9 RBF Riboflavin kinase 2.7.1.26

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1nb9 RBFRiboflavin kinase 2.7.1.26 1.039
5a89 FMNRiboflavin biosynthesis protein RibF 2.7.1.26 0.774
1n07 FMNRiboflavin kinase 2.7.1.26 0.749
5a8a FMNRiboflavin biosynthesis protein RibF 2.7.1.26 0.710
1jqi FADShort-chain specific acyl-CoA dehydrogenase, mitochondrial / 0.709
2j4d FADCryptochrome DASH, chloroplastic/mitochondrial / 0.698
2vtb FADCryptochrome DASH, chloroplastic/mitochondrial / 0.698
3cvu FADRE11660p / 0.698
1x0p FADTll0078 protein / 0.696
3gfy FMNUncharacterized protein / 0.695
4cdm FADDeoxyribodipyrimidine photolyase / 0.695
4eo3 FMNBacterioferritin comigratory protein/NADH dehydrogenase / 0.693
2vig FADShort-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.1 0.692
1yrx FMNAppA protein / 0.684
3cvy FADRE11660p / 0.684
1owl FADDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.682
4hnb FMNLOV protein / 0.680
2hfo FMNActivator of photopigment and puc expression / 0.679
3gfx FMNUncharacterized protein / 0.679
1zpt FAD5,10-methylenetetrahydrofolate reductase 1.5.1.20 0.676
2ijg FADCryptochrome DASH, chloroplastic/mitochondrial / 0.676
4tmb FMNOld yellow enzyme / 0.676
4i6g FADCryptochrome-2 / 0.675
1owo FADDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.671
1owp FADDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.671
2iyg FMNAppA, antirepressor of ppsR, sensor of blue light / 0.671
3nf4 FADAcyl-CoA dehydrogenase domain-containing protein / 0.671
1tez FADDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.668
2wq6 FADRE11660p / 0.668
2z6d FMNPhototropin-2 2.7.11.1 0.667
3zxs FADDeoxyribodipyrimidine photolyase-related protein / 0.667
4gu5 FADCryptochrome-1 / 0.667
1gwj FMNMorphinone reductase / 0.666
2a1t FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.666
1h63 FMNPentaerythritol tetranitrate reductase / 0.665
2wq7 FADRE11660p / 0.665
3d72 FADVivid PAS protein VVD / 0.665
1np7 FADCryptochrome DASH / 0.664
2iid FADL-amino-acid oxidase 1.4.3.2 0.664
3icr FADCoenzyme A disulfide reductase / 0.664
1siq FADGlutaryl-CoA dehydrogenase, mitochondrial 1.3.8.6 0.663
2bun FADAppA protein / 0.663
4e2d FMNDehydrogenase / 0.663
1own FADDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.662
2gqa FMNNADH:flavin oxidoreductase Sye1 / 0.662
2c3c FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.660
3m0o FADMonomeric sarcosine oxidase 1.5.3.1 0.660
1h50 FMNPentaerythritol tetranitrate reductase / 0.658
2ard FDAFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.658
1owm FADDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.657
4hj6 FMNLOV protein / 0.657
4jzy FADCryptochrome-1 / 0.657
1u3c FADCryptochrome-1 / 0.656
2q3r FMN12-oxophytodienoate reductase 1 1.3.1.42 0.655
3hji FADVivid PAS protein VVD / 0.655
3vkj FNRIsopentenyl-diphosphate delta-isomerase / 0.654
4aws FMNNADH:flavin oxidoreductase Sye1 / 0.654
4qly FMNEnone reductase CLA-ER / 0.654
4yl2 FMNLactate oxidase / 0.654
5jsc FADPutative acyl-CoA dehydrogenase / 0.653
3hv7 1AUMitogen-activated protein kinase 14 / 0.652
1dxq FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.651
1iqr FADDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.651
1eje FMNProtein MTH_152 / 0.650
2nli FMNLactate oxidase / 0.650
4jic FMNGTN Reductase / 0.650
4yus FMNFamily 3 adenylate cyclase / 0.650