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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
4ybn FAD Flavin-nucleotide-binding protein

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4ybn FADFlavin-nucleotide-binding protein / 1.410
2i02 FMNPyridoxamine 5'-phosphate oxidase-related, FMN-binding / 0.735
4hmw FMNPyridoxamine 5'-phosphate oxidase / 0.719
1ep3 FADDihydroorotate dehydrogenase B (NAD(+)), electron transfer subunit / 0.713
4af6 FADFerredoxin--NADP reductase, leaf isozyme, chloroplastic 1.18.1.2 0.710
2ok7 FADFerredoxin--NADP reductase, apicoplast / 0.706
3w5u FADFerredoxin / 0.706
4ylf FADDihydroorotate dehydrogenase B (NAD(+)), electron transfer subunit homolog / 0.703
1gaq FADFerredoxin / 0.700
1ogj FADFerredoxin--NADP reductase 1.18.1.2 0.700
2eix FADNADH-cytochrome b5 reductase / 0.695
1i7p FADNADH-cytochrome b5 reductase 3 1.6.2.2 0.690
2gj3 FADNitrogen fixation regulatory protein 2.7.13.3 0.688
4hmx FMNPyridoxamine 5'-phosphate oxidase / 0.687
1qgy FADFerredoxin--NADP reductase 1.18.1.2 0.685
1amo FADNADPH--cytochrome P450 reductase / 0.683
2rc5 FADFerredoxin--NADP reductase / 0.682
1gaw FADFerredoxin / 0.681
3mhp FADFerredoxin--NADP reductase, leaf isozyme, chloroplastic 1.18.1.2 0.679
1w35 FADFerredoxin--NADP reductase 1.18.1.2 0.675
2i51 FMNPyridoxamine 5'-phosphate oxidase-related, FMN-binding / 0.675
1qg0 FADFerredoxin--NADP reductase, leaf isozyme, chloroplastic 1.18.1.2 0.674
1ogi FADFerredoxin--NADP reductase 1.18.1.2 0.672
1efp FADElectron transfer flavoprotein subunit alpha / 0.671
3ewk FADSensory box histidine kinase/response regulator / 0.670
3qe2 FADNADPH--cytochrome P450 reductase / 0.670
1ja1 FADNADPH--cytochrome P450 reductase / 0.669
4hms FMNPhenazine biosynthesis protein PhzG 1.4 0.669
1ewy FADFerredoxin--NADP reductase 1.18.1.2 0.668
1wv4 FMNPyridoxine/pyridoxamine 5'-phosphate oxidase / 0.668
4c3x FAD3-ketosteroid dehydrogenase / 0.667
3qfc FADNADPH--cytochrome P450 reductase / 0.665
3qft FADNADPH--cytochrome P450 reductase / 0.665
1cqx FADFlavohemoprotein / 0.664
2gpj FADSiderophore-interacting protein / 0.663
1e64 FADFerredoxin--NADP reductase 1.18.1.2 0.662
1w87 FADFerredoxin--NADP reductase 1.18.1.2 0.662
2hq9 FADMll6688 protein / 0.662
3zc3 FADFerredoxin--NADP reductase 1.18.1.2 0.662
2bn4 FADNADPH--cytochrome P450 reductase / 0.660
2rc6 FADFerredoxin--NADP reductase / 0.660
2hay FMNPutative NAD(P)H-flavin oxidoreductase / 0.658
4yau FADNADPH--cytochrome P450 reductase / 0.657
4yaf FADNADPH--cytochrome P450 reductase / 0.656
4f07 FADStyrene monooxygenase component 2 / 0.655
1h42 FADFerredoxin--NADP reductase 1.18.1.2 0.654
1ib0 FADNADH-cytochrome b5 reductase 3 1.6.2.2 0.654
3vy2 FMNFMN-binding protein / 0.654
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.653
1krh FADBenzoate 1,2-dioxygenase electron transfer component 1.18.1.3 0.653
1ci0 FMNPyridoxamine 5'-phosphate oxidase 1.4.3.5 0.652
4y9u FADNADPH--cytochrome P450 reductase / 0.652
1bx1 FADFerredoxin--NADP reductase, chloroplastic 1.18.1.2 0.651
1e63 FADFerredoxin--NADP reductase 1.18.1.2 0.651
1gpe FADGlucose oxidase 1.1.3.4 0.651
3gdp FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.651
3r5z F42Uncharacterized protein / 0.651
4uaj FADNa(+)-translocating NADH-quinone reductase subunit F / 0.651
1bx0 FADFerredoxin--NADP reductase, chloroplastic 1.18.1.2 0.650
2v0u FMNNPH1-1 / 0.650
3ge6 FMNNitroreductase / 0.650