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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
1kif 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
1kif FADD-amino-acid oxidase 1.4.3.3 1.612
4yjd FADD-amino-acid oxidase 1.4.3.3 1.359
2du8 FADD-amino-acid oxidase 1.4.3.3 1.236
3cuk FADD-amino-acid oxidase 1.4.3.3 1.151
1ve9 FADD-amino-acid oxidase 1.4.3.3 1.122
3znp FADD-amino-acid oxidase 1.4.3.3 1.121
3vqr FADPutative oxidoreductase / 0.968
1ryi FADGlycine oxidase 1.4.3.19 0.957
3axb FADPutative oxidoreductase / 0.951
1c0k FADD-amino-acid oxidase 1.4.3.3 0.940
1ng3 FADGlycine oxidase 1.4.3.19 0.939
1c0l FADD-amino-acid oxidase 1.4.3.3 0.929
4x9n FADUncharacterized protein MG039 homolog / 0.888
3gsi FADDimethylglycine oxidase 1.5.3.10 0.883
3m0o FADMonomeric sarcosine oxidase 1.5.3.1 0.883
4ysh FADGlycine oxidase / 0.874
4x9m FADUncharacterized protein MG039 homolog / 0.872
3ad9 FADSubunit beta of sarcosine oxidase / 0.853
1ng4 FADGlycine oxidase 1.4.3.19 0.851
3m13 FADMonomeric sarcosine oxidase 1.5.3.1 0.851
5hxw FADL-amino acid deaminase / 0.850
3dme FADPutative conserved exported protein / 0.849
4yxd FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.845
5ez7 FADProbable FAD-dependent oxidoreductase PA4991 / 0.843
3if9 FADGlycine oxidase 1.4.3.19 0.841
4j36 FADKynurenine 3-monooxygenase / 0.818
1kf6 FADFumarate reductase flavoprotein subunit 1.3.5.4 0.817
3m12 FADMonomeric sarcosine oxidase 1.5.3.1 0.817
2e48 FADD-amino-acid oxidase 1.4.3.3 0.814
5c3j FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.814
3sm8 FNKFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.810
2rgh FADAlpha-Glycerophosphate Oxidase / 0.802
3sfe FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.802
4opg FDAConserved Archaeal protein / 0.798
4opd FDAConserved Archaeal protein / 0.797
5c2t FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.796
3nyc FADFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.795
4opt FDAConserved Archaeal protein / 0.794
4j33 FADKynurenine 3-monooxygenase / 0.792
3atq FDAConserved Archaeal protein / 0.787
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.786
1y56 FAD382aa long hypothetical sarcosine oxidase / 0.781
4opi FDAConserved Archaeal protein / 0.780
2qcu FADAerobic glycerol-3-phosphate dehydrogenase 1.1.5.3 0.779
5i39 FADL-amino acid deaminase / 0.777
3pl8 FADPyranose 2-oxidase / 0.772
1qo8 FADFumarate reductase flavoprotein subunit / 0.767
4rsl FADFructosyl peptide oxidase / 0.761
1d4c FADFumarate reductase flavoprotein subunit 1.3.5.4 0.757
3gdp FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.756
3ka7 FADPutative oxidoreductase / 0.755
2i0z FADNAD(FAD)-utilizing dehydrogenases / 0.754
4kx6 FADFumarate reductase flavoprotein subunit 1.3.5.4 0.754
1gth FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.753
3rp8 FADFAD-dependent urate hydroxylase / 0.752
2rgo FADAlpha-Glycerophosphate Oxidase / 0.751
4opc FDAConserved Archaeal protein / 0.751
3awi FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC 1.5 0.748
2ard FDAFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.747
1tdo FADL-amino-acid oxidase 1.4.3.2 0.746
2wet FADTryptophan 5-halogenase / 0.742
4opl FDAConserved Archaeal protein / 0.742
3ic9 FADPutative dihydrolipoamide dehydrogenase / 0.741
3pvc FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.739
1knp FADL-aspartate oxidase 1.4.3.16 0.735
4j2w FADKynurenine 3-monooxygenase / 0.735
4c3x FAD3-ketosteroid dehydrogenase / 0.734
3atr FDAConserved Archaeal protein / 0.731
3ae4 FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.730
4ytn FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.730
1gte FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.729
1tdn FADL-amino-acid oxidase 1.4.3.2 0.729
4bjz FADProbable salicylate monooxygenase / 0.729
1h7w FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.728
2c3d FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.728
2v3a FADRubredoxin-NAD(+) reductase 1.18.1.1 0.726
3aeb FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.726
3sgl FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.726
2y48 FADLysine-specific histone demethylase 1A 1 0.725
1tdk FADL-amino-acid oxidase 1.4.3.2 0.724
3dk8 FADGlutathione reductase, mitochondrial 1.8.1.7 0.723
3sfd FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.721
4z24 FADPutative GMC-type oxidoreductase R135 1 0.721
2gmh FADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial 1.5.5.1 0.720
2bac FADPutative aminooxidase / 0.719
3lov FADProtoporphyrinogen oxidase / 0.719
4mih FADPyranose 2-oxidase 1.1.3.10 0.718
4udq FAD5-(hydroxymethyl)furfural oxidase / 0.717
1cc2 FADCholesterol oxidase 1.1.3.6 0.716
2b9y FADPutative aminooxidase / 0.716
1onf FADGlutathione reductase 1.8.1.7 0.714
2byc FMNBlue-light receptor of the BLUF-family / 0.713
2jkc FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.713
3gyj FADCholesterol oxidase 1.1.3.6 0.713
4opu FDAConserved Archaeal protein / 0.713
2c3c FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.712
2x8h FADThioredoxin glutathione reductase / 0.710
1n1p FADCholesterol oxidase 1.1.3.6 0.707
2ign FADPyranose 2-oxidase / 0.707
3cnd FADPolyamine oxidase FMS1 / 0.706
4emj FADToluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component 1.18.1.3 0.706
1ijh FADCholesterol oxidase 1.1.3.6 0.703
1n4v FADCholesterol oxidase 1.1.3.6 0.703
1n4w FADCholesterol oxidase 1.1.3.6 0.703
2dw4 FADLysine-specific histone demethylase 1A 1 0.703
2gew FADCholesterol oxidase 1.1.3.6 0.703
2nvk FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.703
3cnt FADPolyamine oxidase FMS1 / 0.703
4qi4 FADCellobiose dehydrogenase / 0.703
4rek FADCholesterol oxidase 1.1.3.6 0.703
4xwr FADCholesterol oxidase 1.1.3.6 0.703
4xxg FADCholesterol oxidase 1.1.3.6 0.703
5hsa FASAlcohol oxidase 1 1.1.3.13 0.703
1n4u FAECholesterol oxidase 1.1.3.6 0.702
3gyi FADCholesterol oxidase 1.1.3.6 0.702
3lsh FADPyranose 2-oxidase / 0.702
4qi5 FADCellobiose dehydrogenase / 0.701
4u2s FDACholesterol oxidase 1.1.3.6 0.701
1b4v FADCholesterol oxidase 1.1.3.6 0.700
1wam FADUDP-galactopyranose mutase 5.4.99.9 0.700
1cbo FADCholesterol oxidase 1.1.3.6 0.698
1q1w FADPutidaredoxin reductase 1.18.1.5 0.698
2yg6 FADPutrescine oxidase / 0.698
1b8s FADCholesterol oxidase 1.1.3.6 0.697
1q1r FADPutidaredoxin reductase 1.18.1.5 0.697
1reo FADL-amino-acid oxidase 1.4.3.2 0.697
4bk3 FADProbable salicylate monooxygenase / 0.697
4u2t FADCholesterol oxidase 1.1.3.6 0.697
1xdi FADNAD(P)H dehydrogenase (quinone) / 0.696
1z6l FADPolyamine oxidase FMS1 / 0.696
1grb FADGlutathione reductase, mitochondrial 1.8.1.7 0.695
3k4c FADPyranose 2-oxidase / 0.695
2iw5 FADLysine-specific histone demethylase 1A 1 0.694
2wba FADTrypanothione reductase 1.8.1.12 0.694
1mxt FAECholesterol oxidase 1.1.3.6 0.692
1s7g APRNAD-dependent protein deacylase 2 / 0.692
3djg FADGlutathione reductase, mitochondrial 1.8.1.7 0.692
3q9t FAYUncharacterized protein / 0.692
4gut FADLysine-specific histone demethylase 1B 1 0.692
4wct FADFructosyl amine:oxygen oxidoreductase / 0.692
2xlr FADPutative flavin-containing monooxygenase / 0.691
3dh9 FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.691
4cnk FADL-amino acid oxidase / 0.691
4hsu FADLysine-specific histone demethylase 1B 1 0.691
2aqj FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.690
2b9w FADPutative aminooxidase / 0.689
2yr5 FADPhenylalanine 2-monooxygenase precursor 1.13.12.9 0.689
3qvp FADGlucose oxidase 1.1.3.4 0.689
4i58 FADCyclohexylamine Oxidase / 0.689
4j34 FADKynurenine 3-monooxygenase / 0.689
1x0p FADTll0078 protein / 0.688
2bi8 FADUDP-galactopyranose mutase 5.4.99.9 0.688
2gh5 FADGlutathione reductase, mitochondrial 1.8.1.7 0.688
3cox FADCholesterol oxidase 1.1.3.6 0.688
5j60 FADThioredoxin reductase / 0.688
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.687
4cnj FADL-amino acid oxidase / 0.687
1gal FADGlucose oxidase 1.1.3.4 0.686
2b9x FADPutative aminooxidase / 0.686
2e1m FADL-glutamate oxidase / 0.686
2bab FADPutative aminooxidase / 0.685
4xbf FADLysine-specific histone demethylase 1A 1 0.685
3lad FADDihydrolipoyl dehydrogenase / 0.684
2vvl FADMonoamine oxidase N 1.4.3.4 0.683
3cnj FADCholesterol oxidase 1.1.3.6 0.683
2pd8 FADVivid PAS protein VVD / 0.681
2vou FAD2,6-dihydroxypyridine 3-monooxygenase 1.14.13.10 0.680
3ab1 FADFerredoxin--NADP reductase 1.18.1.2 0.680
4j57 FADThioredoxin reductase 2 1.8.1.9 0.680
4k2x FADPolyketide oxygenase/hydroxylase / 0.680
5fs7 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.680
2gv8 FADThiol-specific monooxygenase 1.14.13 0.679
2c12 FADNitroalkane oxidase 1.7.3.1 0.677
3int FDAUDP-galactopyranose mutase 5.4.99.9 0.677
5dbj FADFADH2-dependent halogenase PltA / 0.677
3kve FADL-amino-acid oxidase / 0.676
4gap FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial 1.6.5.9 0.676
3ntd FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.675
2wes FADTryptophan 5-halogenase / 0.673
3lb8 FADPutidaredoxin reductase 1.18.1.5 0.673
1geu FADGlutathione reductase 1.8.1.7 0.672
1grh FADGlutathione reductase, mitochondrial 1.8.1.7 0.672
2ba9 FADPutative aminooxidase / 0.672
3nt6 FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.672
3ue6 FMNAureochrome1 / 0.672
4hj3 FMNLOV protein / 0.672
1nhp FADNADH peroxidase 1.11.1.1 0.671
2c4c FAD[F-actin]-methionine sulfoxide oxidase MICAL1 1.14.13 0.671
3dgh FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.671
4bvh AR6NAD-dependent protein deacetylase sirtuin-3, mitochondrial 3.5.1 0.671
4eer FMNPhototropin-2 2.7.11.1 0.671
4wx1 FDAUDP-galactopyranose mutase / 0.671
1bwc FADGlutathione reductase, mitochondrial 1.8.1.7 0.670
2q0k FADThioredoxin reductase 1.8.1.9 0.670
2xve FADPutative flavin-containing monooxygenase / 0.670
3dk9 FADGlutathione reductase, mitochondrial 1.8.1.7 0.670
1gre FADGlutathione reductase, mitochondrial 1.8.1.7 0.669
2yg3 FADPutrescine oxidase / 0.669
3utg FDAUDP-galactopyranose mutase / 0.669
4ocg FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.669
4u8k FDAUDP-galactopyranose mutase / 0.669
2bi7 FADUDP-galactopyranose mutase 5.4.99.9 0.668
4kpr FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.668
4u2l SFDCholesterol oxidase 1.1.3.6 0.668
4ynt FDAGlucose oxidase, putative / 0.668
2zz0 FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.667
1gsn FADGlutathione reductase, mitochondrial 1.8.1.7 0.665
3d72 FADVivid PAS protein VVD / 0.665
4g73 FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial 1.6.5.9 0.663
5l3d FADLysine-specific histone demethylase 1A 1 0.663
1f8s FADL-amino-acid oxidase 1.4.3.2 0.662
1ps9 FAD2,4-dienoyl-CoA reductase 1.3.1.34 0.662
2iid FADL-amino-acid oxidase 1.4.3.2 0.662
3qj4 FADRenalase / 0.662
4g6h FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial 1.6.5.9 0.662
1tde FADThioredoxin reductase 1.8.1.9 0.661
3bi5 FADPolyamine oxidase FMS1 / 0.661
3lsm SFDPyranose 2-oxidase / 0.661
1h6v FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.660
1rsg FADPolyamine oxidase FMS1 / 0.660
1sez FADProtoporphyrinogen oxidase, mitochondrial 1.3.3.4 0.660
2ar8 FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.660
3ics FADCoenzyme A disulfide reductase / 0.660
3oc4 FADOxidoreductase, pyridine nucleotide-disulfide family / 0.660
5hy5 FADTryptophan 6-halogenase / 0.660
1fec FADTrypanothione reductase 1.8.1.12 0.659
2pr5 FMNBlue-light photoreceptor / 0.659
4cy8 FDA2-hydroxybiphenyl-3-monooxygenase / 0.659
4gav FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial 1.6.5.9 0.659
1d4d FADFumarate reductase flavoprotein subunit 1.3.5.4 0.658
1h63 FMNPentaerythritol tetranitrate reductase / 0.658
1h83 FADPolyamine oxidase 1.5.3.14 0.657
2x3n FADProbable FAD-dependent monooxygenase / 0.657
3is2 FADVivid PAS protein VVD / 0.657
4gdp FADPolyamine oxidase FMS1 / 0.657
4kuk RBFPutative blue-light photoreceptor / 0.657
2j09 FMNDeoxyribodipyrimidine photo-lyase 4.1.99.3 0.656
4ntc FADThioredoxin reductase gliT / 0.656
4o5u FADAlkyl hydroperoxide reductase subunit F 1.8.1 0.656
1k0j FADp-hydroxybenzoate hydroxylase / 0.655
1sbz FMNProbable UbiX-like flavin prenyltransferase / 0.655
1zmd FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.655
2hko FADLysine-specific histone demethylase 1A 1 0.655
2jk6 FADTrypanothione reductase / 0.655
2yvj FADFerredoxin reductase / 0.655
3k7m FAD6-hydroxy-L-nicotine oxidase / 0.655
4fwj FADLysine-specific histone demethylase 1B 1 0.655
1nhr FADNADH peroxidase 1.11.1.1 0.654
2yqu FADDihydrolipoyl dehydrogenase / 0.654
4mok FADPyranose 2-oxidase / 0.654
4r38 RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.654
5a8a FMNRiboflavin biosynthesis protein RibF 2.7.1.26 0.654
1bx1 FADFerredoxin--NADP reductase, chloroplastic 1.18.1.2 0.653
1tdf FADThioredoxin reductase 1.8.1.9 0.653
2qa1 FADPgaE / 0.653
3dk4 FADGlutathione reductase, mitochondrial 1.8.1.7 0.653
3gg0 FMNUncharacterized protein / 0.653
3lsi FADPyranose 2-oxidase / 0.653
1f8r FADL-amino-acid oxidase 1.4.3.2 0.652
1trb FADThioredoxin reductase 1.8.1.9 0.652
2x8g FADThioredoxin glutathione reductase / 0.652
3kpf FADPolyamine oxidase 1.5.3.14 0.652
3uth FDAUDP-galactopyranose mutase / 0.652
4c3y FAD3-ketosteroid dehydrogenase / 0.652
4gde FDAUDP-galactopyranose mutase / 0.652
4gr1 FADGlutathione reductase, mitochondrial 1.8.1.7 0.652
4k5r FADOxygenase / 0.652
4la1 FADThioredoxin glutathione reductase / 0.652
4uir FADOleate hydratase 4.2.1.53 0.652
1f8w FADNADH peroxidase 1.11.1.1 0.651
1mo9 FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.651
4udr FAD5-(hydroxymethyl)furfural oxidase / 0.651
1npx FADNADH peroxidase 1.11.1.1 0.650
2ylx FADPhenylacetone monooxygenase 1.14.13.92 0.650
4nte FADDepH / 0.650
4yry FADGlutamate synthase, beta subunit / 0.650
5buk FADFADH2-dependent halogenase / 0.650