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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
3aeb FAD Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3aeb FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 1.527
3sfd FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 1.232
3sfe FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 1.228
3ae4 FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 1.181
4yxd FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 1.150
5c3j FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 1.136
4ytn FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 1.095
5c2t FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 1.016
1kf6 FADFumarate reductase flavoprotein subunit 1.3.5.4 0.940
4kx6 FADFumarate reductase flavoprotein subunit 1.3.5.4 0.896
1knp FADL-aspartate oxidase 1.4.3.16 0.885
1d4c FADFumarate reductase flavoprotein subunit 1.3.5.4 0.857
1knr FADL-aspartate oxidase 1.4.3.16 0.853
1qo8 FADFumarate reductase flavoprotein subunit / 0.791
4yjd FADD-amino-acid oxidase 1.4.3.3 0.780
3cuk FADD-amino-acid oxidase 1.4.3.3 0.737
1kif FADD-amino-acid oxidase 1.4.3.3 0.726
1ryi FADGlycine oxidase 1.4.3.19 0.719
1c0k FADD-amino-acid oxidase 1.4.3.3 0.718
2z6d FMNPhototropin-2 2.7.11.1 0.716
5ez7 FADProbable FAD-dependent oxidoreductase PA4991 / 0.714
4eer FMNPhototropin-2 2.7.11.1 0.711
3atq FDAConserved Archaeal protein / 0.708
1ng4 FADGlycine oxidase 1.4.3.19 0.705
3dme FADPutative conserved exported protein / 0.701
4x9m FADUncharacterized protein MG039 homolog / 0.701
1gal FADGlucose oxidase 1.1.3.4 0.699
2du8 FADD-amino-acid oxidase 1.4.3.3 0.699
2gqf FADUncharacterized protein HI_0933 / 0.699
2c3c FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.698
4x9n FADUncharacterized protein MG039 homolog / 0.696
2qcu FADAerobic glycerol-3-phosphate dehydrogenase 1.1.5.3 0.695
3atr FDAConserved Archaeal protein / 0.693
4nwz FADFAD-dependent pyridine nucleotide-disulfide oxidoreductase / 0.693
1h81 FADPolyamine oxidase 1.5.3.14 0.692
3lsi FADPyranose 2-oxidase / 0.692
1tdf FADThioredoxin reductase 1.8.1.9 0.690
4opl FDAConserved Archaeal protein / 0.690
3kpk FADSulfide-quinone reductase / 0.689
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.689
4opt FDAConserved Archaeal protein / 0.688
3lsh FADPyranose 2-oxidase / 0.686
4opu FDAConserved Archaeal protein / 0.686
3clt FADElectron transfer flavoprotein subunit alpha / 0.685
4yry FADGlutamate synthase, beta subunit / 0.685
3axb FADPutative oxidoreductase / 0.683
3k4c FADPyranose 2-oxidase / 0.682
3znp FADD-amino-acid oxidase 1.4.3.3 0.682
4fwf FADLysine-specific histone demethylase 1B 1 0.682
4opc FDAConserved Archaeal protein / 0.682
1xdi FADNAD(P)H dehydrogenase (quinone) / 0.681
4gut FADLysine-specific histone demethylase 1B 1 0.681
4wuj FMNGlycoside hydrolase family 15, cellulose signaling associated protein envoy / 0.681
2v0u FMNNPH1-1 / 0.680
2v1a FMNNPH1-1 / 0.680
3m0o FADMonomeric sarcosine oxidase 1.5.3.1 0.680
4eep FMNPhototropin-2 2.7.11.1 0.680
4cnj FADL-amino acid oxidase / 0.679
4ntc FADThioredoxin reductase gliT / 0.679
4opd FDAConserved Archaeal protein / 0.677
4ynt FDAGlucose oxidase, putative / 0.676
4qi5 FADCellobiose dehydrogenase / 0.675
4wct FADFructosyl amine:oxygen oxidoreductase / 0.675
4qi4 FADCellobiose dehydrogenase / 0.674
1tde FADThioredoxin reductase 1.8.1.9 0.673
2yg3 FADPutrescine oxidase / 0.673
5j60 FADThioredoxin reductase / 0.673
3t50 FMNBlue-light-activated histidine kinase 2.7.13.3 0.672
4emw FADCoenzyme A disulfide reductase / 0.672
1c0l FADD-amino-acid oxidase 1.4.3.3 0.671
3qvr FADGlucose oxidase 1.1.3.4 0.671
5i39 FADL-amino acid deaminase / 0.671
4rsl FADFructosyl peptide oxidase / 0.669
4wf0 FMNNPH1-1 / 0.669
1i0s FMNFerric-chelate reductase (NAD(P)H) / 0.668
3cty FADProbable thioredoxin reductase / 0.668
4c3y FAD3-ketosteroid dehydrogenase / 0.668
1yrx FMNAppA protein / 0.667
2iyg FMNAppA, antirepressor of ppsR, sensor of blue light / 0.667
3qvp FADGlucose oxidase 1.1.3.4 0.667
3vqr FADPutative oxidoreductase / 0.667
1icu FMNOxygen-insensitive NAD(P)H nitroreductase / 0.666
2yr5 FADPhenylalanine 2-monooxygenase precursor 1.13.12.9 0.666
4fwe FADLysine-specific histone demethylase 1B 1 0.666
4r38 RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.666
2gmh FADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial 1.5.5.1 0.665
2yg7 FADPutrescine oxidase / 0.665
3lsm SFDPyranose 2-oxidase / 0.665
4ech FADPolyamine oxidase FMS1 / 0.665
4gcm FADThioredoxin reductase 1.8.1.9 0.665
2z6c FMNPhototropin-1 2.7.11.1 0.664
3gfy FMNUncharacterized protein / 0.663
1zy8 FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.662
4fwj FADLysine-specific histone demethylase 1B 1 0.662
4ysh FADGlycine oxidase / 0.662
1mo9 FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.661
3gdp FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.661
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.660
1rp0 AHZThiamine thiazole synthase, chloroplastic / 0.660
2dw4 FADLysine-specific histone demethylase 1A 1 0.660
3bm1 FMNPutative NAD(P)H nitroreductase YdjA / 0.660
1x0p FADTll0078 protein / 0.659
4eqs FADCoenzyme A disulfide reductase / 0.659
4eqx FADCoenzyme A disulfide reductase / 0.659
4gdp FADPolyamine oxidase FMS1 / 0.659
1gth FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.658
1kqb FMNOxygen-insensitive NAD(P)H nitroreductase / 0.658
2gj3 FADNitrogen fixation regulatory protein 2.7.13.3 0.658
1n9l FMNPutative blue light receptor / 0.657
1ng3 FADGlycine oxidase 1.4.3.19 0.657
4krh SAMPhosphoethanolamine N-methyltransferase 2 / 0.657
4r3a RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.657
2qae FADDihydrolipoyl dehydrogenase 1.8.1.4 0.656
3gsi FADDimethylglycine oxidase 1.5.3.10 0.656
4fk1 FADPutative thioredoxin reductase / 0.656
4o5q FADAlkyl hydroperoxide reductase subunit F 1.8.1 0.656
4z24 FADPutative GMC-type oxidoreductase R135 1 0.656
3ue6 FMNAureochrome1 / 0.655
4eqr FADCoenzyme A disulfide reductase / 0.655
1zmc FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.654
2yqu FADDihydrolipoyl dehydrogenase / 0.654
3clr FADElectron transfer flavoprotein subunit alpha / 0.654
3f8d FADNADH oxidase/thioredoxin reductase / 0.654
3ic9 FADPutative dihydrolipoamide dehydrogenase / 0.654
3ka7 FADPutative oxidoreductase / 0.654
4gu5 FADCryptochrome-1 / 0.653
4o5u FADAlkyl hydroperoxide reductase subunit F 1.8.1 0.653
2iw5 FADLysine-specific histone demethylase 1A 1 0.652
2r9z FADGlutathione amide reductase / 0.652
3k30 ADPHistamine dehydrogenase / 0.652
3mzi FMNActivator of photopigment and puc expression / 0.652
4lii FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.652
1dnc FADGlutathione reductase, mitochondrial 1.8.1.7 0.651
1rsg FADPolyamine oxidase FMS1 / 0.651
3cnt FADPolyamine oxidase FMS1 / 0.651
4em4 FADCoenzyme A disulfide reductase / 0.651
1gpe FADGlucose oxidase 1.1.3.4 0.650
1vrq FMNSubunit alpha of sarocosine oxidase / 0.650
1vrq FMNSubunit beta of sarcosine oxidase / 0.650
2yg6 FADPutrescine oxidase / 0.650
3pft FMNFlavin reductase / 0.650
4hh0 FMNAppA protein / 0.650
5eb5 FAD(R)-mandelonitrile lyase 1 4.1.2.10 0.650