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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
1ve9 FAD D-amino-acid oxidase 1.4.3.3

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1ve9 FADD-amino-acid oxidase 1.4.3.3 1.525
4yjd FADD-amino-acid oxidase 1.4.3.3 1.163
1kif FADD-amino-acid oxidase 1.4.3.3 1.122
2du8 FADD-amino-acid oxidase 1.4.3.3 1.090
3znp FADD-amino-acid oxidase 1.4.3.3 1.005
3cuk FADD-amino-acid oxidase 1.4.3.3 0.984
1ryi FADGlycine oxidase 1.4.3.19 0.947
1ng4 FADGlycine oxidase 1.4.3.19 0.922
1ng3 FADGlycine oxidase 1.4.3.19 0.870
1c0k FADD-amino-acid oxidase 1.4.3.3 0.855
1c0l FADD-amino-acid oxidase 1.4.3.3 0.844
4ysh FADGlycine oxidase / 0.815
3vqr FADPutative oxidoreductase / 0.806
3gsi FADDimethylglycine oxidase 1.5.3.10 0.795
2e48 FADD-amino-acid oxidase 1.4.3.3 0.793
4x9n FADUncharacterized protein MG039 homolog / 0.793
3axb FADPutative oxidoreductase / 0.792
3if9 FADGlycine oxidase 1.4.3.19 0.786
3lsi FADPyranose 2-oxidase / 0.771
3pl8 FADPyranose 2-oxidase / 0.765
3cty FADProbable thioredoxin reductase / 0.763
3dme FADPutative conserved exported protein / 0.763
4j33 FADKynurenine 3-monooxygenase / 0.763
3ab1 FADFerredoxin--NADP reductase 1.18.1.2 0.754
3atq FDAConserved Archaeal protein / 0.751
3ka7 FADPutative oxidoreductase / 0.750
4x9m FADUncharacterized protein MG039 homolog / 0.748
2rgh FADAlpha-Glycerophosphate Oxidase / 0.746
3rnm FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.744
2ign FADPyranose 2-oxidase / 0.743
2igo FADPyranose 2-oxidase / 0.743
4opt FDAConserved Archaeal protein / 0.742
3sm8 FNKFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.741
4c3y FAD3-ketosteroid dehydrogenase / 0.741
4j36 FADKynurenine 3-monooxygenase / 0.740
2h94 FADLysine-specific histone demethylase 1A 1 0.739
4mih FADPyranose 2-oxidase 1.1.3.10 0.739
4rsl FADFructosyl peptide oxidase / 0.737
3lsh FADPyranose 2-oxidase / 0.736
5i39 FADL-amino acid deaminase / 0.735
2zbw FADFerredoxin--NADP reductase / 0.728
3nyc FADFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.727
1kf6 FADFumarate reductase flavoprotein subunit 1.3.5.4 0.726
1y56 FAD382aa long hypothetical sarcosine oxidase / 0.725
1zmd FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.724
1tdo FADL-amino-acid oxidase 1.4.3.2 0.721
3atr FDAConserved Archaeal protein / 0.721
2jae FADL-amino acid oxidase / 0.720
3sfd FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.720
4c3x FAD3-ketosteroid dehydrogenase / 0.720
2gh5 FADGlutathione reductase, mitochondrial 1.8.1.7 0.719
4opl FDAConserved Archaeal protein / 0.719
4gut FADLysine-specific histone demethylase 1B 1 0.718
4opd FDAConserved Archaeal protein / 0.717
5hxw FADL-amino acid deaminase / 0.717
3sfe FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.716
4k5r FADOxygenase / 0.716
1gpe FADGlucose oxidase 1.1.3.4 0.714
2qcu FADAerobic glycerol-3-phosphate dehydrogenase 1.1.5.3 0.713
1z6l FADPolyamine oxidase FMS1 / 0.711
2gmh FADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial 1.5.5.1 0.711
2fje FADAdenylylsulfate reductase, subunit A (AprA) / 0.710
3m0o FADMonomeric sarcosine oxidase 1.5.3.1 0.710
3m12 FADMonomeric sarcosine oxidase 1.5.3.1 0.710
4bk3 FADProbable salicylate monooxygenase / 0.710
4opu FDAConserved Archaeal protein / 0.710
4cnk FADL-amino acid oxidase / 0.709
2bab FADPutative aminooxidase / 0.708
4bjz FADProbable salicylate monooxygenase / 0.708
4j34 FADKynurenine 3-monooxygenase / 0.704
4fwf FADLysine-specific histone demethylase 1B 1 0.701
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.701
2yqu FADDihydrolipoyl dehydrogenase / 0.699
4yxd FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.699
1jeh FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.697
3gmb FAD2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase / 0.697
2eq7 FADDihydrolipoyl dehydrogenase / 0.696
4hsu FADLysine-specific histone demethylase 1B 1 0.695
2qae FADDihydrolipoyl dehydrogenase 1.8.1.4 0.694
3ad9 FADSubunit beta of sarcosine oxidase / 0.694
4gr1 FADGlutathione reductase, mitochondrial 1.8.1.7 0.694
4gur FADLysine-specific histone demethylase 1B 1 0.694
4opc FDAConserved Archaeal protein / 0.694
1ebd FADDihydrolipoyl dehydrogenase 1.8.1.4 0.693
1rsg FADPolyamine oxidase FMS1 / 0.693
3cn8 FADPolyamine oxidase FMS1 / 0.693
2ard FDAFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.692
4j57 FADThioredoxin reductase 2 1.8.1.9 0.692
2fja FADAdenylylsulfate reductase, subunit A (AprA) / 0.691
3v76 FDAUncharacterized protein / 0.691
2x8h FADThioredoxin glutathione reductase / 0.690
4j31 FADKynurenine 3-monooxygenase / 0.689
1yy5 FADPolyamine oxidase FMS1 / 0.688
2e1m FADL-glutamate oxidase / 0.688
3k4c FADPyranose 2-oxidase / 0.688
3lzx FADFerredoxin--NADP reductase 2 1.18.1.2 0.688
4cnj FADL-amino acid oxidase / 0.688
3m13 FADMonomeric sarcosine oxidase 1.5.3.1 0.687
2yg7 FADPutrescine oxidase / 0.685
2jb2 FADL-amino acid oxidase / 0.683
2iid FADL-amino-acid oxidase 1.4.3.2 0.682
2xdo FADTetX family tetracycline inactivation enzyme / 0.682
3d72 FADVivid PAS protein VVD / 0.682
2jb1 FADL-amino acid oxidase / 0.681
3oc4 FADOxidoreductase, pyridine nucleotide-disulfide family / 0.681
3sqp FADGlutathione reductase, mitochondrial 1.8.1.7 0.681
1lpf FADDihydrolipoyl dehydrogenase 1.8.1.4 0.680
3bm1 FMNPutative NAD(P)H nitroreductase YdjA / 0.680
1k4q FADGlutathione reductase, mitochondrial 1.8.1.7 0.679
2x8g FADThioredoxin glutathione reductase / 0.679
2b9w FADPutative aminooxidase / 0.678
2qa1 FADPgaE / 0.678
3gdp FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.678
4opi FDAConserved Archaeal protein / 0.678
5c3j FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.678
1jnr FADAdenylylsulfate reductase, subunit A (AprA) / 0.677
3cnd FADPolyamine oxidase FMS1 / 0.677
4mok FADPyranose 2-oxidase / 0.677
4opg FDAConserved Archaeal protein / 0.677
4ynt FDAGlucose oxidase, putative / 0.677
2c12 FADNitroalkane oxidase 1.7.3.1 0.676
3bg7 FADPyranose 2-oxidase / 0.676
3da1 FADGlycerol-3-phosphate dehydrogenase / 0.676
3ean FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.676
4jdr FADDihydrolipoyl dehydrogenase 1.8.1.4 0.676
2pdt FADVivid PAS protein VVD / 0.675
2v3a FADRubredoxin-NAD(+) reductase 1.18.1.1 0.675
2yg4 FADPutrescine oxidase / 0.675
1qo8 FADFumarate reductase flavoprotein subunit / 0.674
1zmc FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.674
4eep FMNPhototropin-2 2.7.11.1 0.674
4fwe FADLysine-specific histone demethylase 1B 1 0.674
4m52 FADDihydrolipoyl dehydrogenase 1.8.1.4 0.674
4wct FADFructosyl amine:oxygen oxidoreductase / 0.674
5af7 FADAcyl-CoA dehydrogenase / 0.674
3alj FAD2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase / 0.673
4h2n FAD2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase / 0.673
4xbf FADLysine-specific histone demethylase 1A 1 0.673
1tdk FADL-amino-acid oxidase 1.4.3.2 0.672
4gus FADLysine-specific histone demethylase 1B 1 0.672
1gsn FADGlutathione reductase, mitochondrial 1.8.1.7 0.671
4hb9 FADUncharacterized protein / 0.671
1d4c FADFumarate reductase flavoprotein subunit 1.3.5.4 0.670
2eq8 FADDihydrolipoyl dehydrogenase / 0.670
3dgh FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.670
3hjk FADVivid PAS protein VVD / 0.670
3hji FADVivid PAS protein VVD / 0.669
3qvp FADGlucose oxidase 1.1.3.4 0.668
4z44 FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.668
5ez7 FADProbable FAD-dependent oxidoreductase PA4991 / 0.668
2hko FADLysine-specific histone demethylase 1A 1 0.667
2i0z FADNAD(FAD)-utilizing dehydrogenases / 0.667
4jq9 FADDihydrolipoyl dehydrogenase / 0.667
3gg0 FMNUncharacterized protein / 0.666
3nlc FADUncharacterized protein / 0.666
4at0 FADPossible succinate dehydrogenase / 0.666
4ntc FADThioredoxin reductase gliT / 0.666
2hqm FADGlutathione reductase 1.8.1.7 0.665
4b1b FADThioredoxin reductase 1.8.1.9 0.665
2jkc FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.664
3ae4 FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.664
4kpr FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.664
1ges FADGlutathione reductase 1.8.1.7 0.663
2fjd SFDAdenylylsulfate reductase, subunit A (AprA) / 0.663
3k7m FAD6-hydroxy-L-nicotine oxidase / 0.663
1ger FADGlutathione reductase 1.8.1.7 0.662
1trb FADThioredoxin reductase 1.8.1.9 0.662
3cge FADCoenzyme A disulfide reductase / 0.662
1get FADGlutathione reductase 1.8.1.7 0.661
1knp FADL-aspartate oxidase 1.4.3.16 0.661
1v59 FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.661
1xpq FADPolyamine oxidase FMS1 / 0.661
4ees FMNPhototropin-2 2.7.11.1 0.661
4u8i FDAUDP-galactopyranose mutase / 0.661
5j60 FADThioredoxin reductase / 0.661
5l3d FADLysine-specific histone demethylase 1A 1 0.661
3b6d FAECholesterol oxidase 1.1.3.6 0.660
3is2 FADVivid PAS protein VVD / 0.660
4eer FMNPhototropin-2 2.7.11.1 0.660
1gra FADGlutathione reductase, mitochondrial 1.8.1.7 0.659
3mkh FADNitroalkane oxidase / 0.659
3nta FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.659
1geu FADGlutathione reductase 1.8.1.7 0.658
2fjb SFDAdenylylsulfate reductase, subunit A (AprA) / 0.658
2pd7 FADVivid PAS protein VVD / 0.658
2v0u FMNNPH1-1 / 0.658
3dk4 FADGlutathione reductase, mitochondrial 1.8.1.7 0.658
4j2w FADKynurenine 3-monooxygenase / 0.658
2eq9 FADDihydrolipoyl dehydrogenase / 0.657
2vvl FADMonoamine oxidase N 1.4.3.4 0.657
1tdn FADL-amino-acid oxidase 1.4.3.2 0.656
3cnt FADPolyamine oxidase FMS1 / 0.656
3dh9 FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.656
3djj FADGlutathione reductase, mitochondrial 1.8.1.7 0.656
1reo FADL-amino-acid oxidase 1.4.3.2 0.655
2b9y FADPutative aminooxidase / 0.655
3awi FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC 1.5 0.655
2wet FADTryptophan 5-halogenase / 0.654
2j09 FMNDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.653
3mzi FMNActivator of photopigment and puc expression / 0.653
4fwj FADLysine-specific histone demethylase 1B 1 0.653
1onf FADGlutathione reductase 1.8.1.7 0.652
2bac FADPutative aminooxidase / 0.651
2c4c FAD[F-actin]-methionine sulfoxide oxidase MICAL1 1.14.13 0.651
2f5z FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.651
2vou FAD2,6-dihydroxypyridine 3-monooxygenase 1.14.13.10 0.651
2y48 FADLysine-specific histone demethylase 1A 1 0.651
3sgl FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.651
4eeu FMNPhototropin-2 2.7.11.1 0.651
4wuj FMNGlycoside hydrolase family 15, cellulose signaling associated protein envoy / 0.650