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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
3we0 FAD Lysine 2-monooxygenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
3we0 FADLysine 2-monooxygenase / 1.430
1rsg FADPolyamine oxidase FMS1 / 1.010
2yr5 FADPhenylalanine 2-monooxygenase precursor 1.13.12.9 1.000
4gdp FADPolyamine oxidase FMS1 / 0.993
3cnt FADPolyamine oxidase FMS1 / 0.949
1h83 FADPolyamine oxidase 1.5.3.14 0.928
4xbf FADLysine-specific histone demethylase 1A 1 0.922
2y48 FADLysine-specific histone demethylase 1A 1 0.908
3k7t FAD6-hydroxy-L-nicotine oxidase / 0.902
2dw4 FADLysine-specific histone demethylase 1A 1 0.888
2jae FADL-amino acid oxidase / 0.881
4ech FADPolyamine oxidase FMS1 / 0.871
2iw5 FADLysine-specific histone demethylase 1A 1 0.866
3bi2 FADPolyamine oxidase FMS1 / 0.864
5g3t FDAFlavin-dependent L-tryptophan oxidase VioA / 0.861
2e1m FADL-glutamate oxidase / 0.850
3bi5 FADPolyamine oxidase FMS1 / 0.849
2yr4 FADPhenylalanine 2-monooxygenase precursor 1.13.12.9 0.848
3cnd FADPolyamine oxidase FMS1 / 0.848
1yy5 FADPolyamine oxidase FMS1 / 0.847
1f8s FADL-amino-acid oxidase 1.4.3.2 0.845
1f8r FADL-amino-acid oxidase 1.4.3.2 0.838
2jb1 FADL-amino acid oxidase / 0.832
2iid FADL-amino-acid oxidase 1.4.3.2 0.825
2vvl FADMonoamine oxidase N 1.4.3.4 0.825
1sez FADProtoporphyrinogen oxidase, mitochondrial 1.3.3.4 0.824
3kpf FADPolyamine oxidase 1.5.3.14 0.822
2jb2 FADL-amino acid oxidase / 0.820
2uxx FAJLysine-specific histone demethylase 1A 1 0.818
3utf FDAUDP-galactopyranose mutase / 0.818
3cn8 FADPolyamine oxidase FMS1 / 0.815
3qj4 FADRenalase / 0.808
4fwf FADLysine-specific histone demethylase 1B 1 0.806
3ukf FDAUDP-galactopyranose mutase / 0.804
3kve FADL-amino-acid oxidase / 0.797
1h81 FADPolyamine oxidase 1.5.3.14 0.793
4u8o FDAUDP-galactopyranose mutase / 0.784
3ic9 FADPutative dihydrolipoamide dehydrogenase / 0.781
5g3s FDAFlavin-dependent L-tryptophan oxidase VioA / 0.779
5l3d FADLysine-specific histone demethylase 1A 1 0.779
3ukl FADUDP-galactopyranose mutase / 0.777
4u8l FDAUDP-galactopyranose mutase / 0.771
4fwj FADLysine-specific histone demethylase 1B 1 0.769
3uth FDAUDP-galactopyranose mutase / 0.767
4u8n FDAUDP-galactopyranose mutase / 0.767
4wx1 FDAUDP-galactopyranose mutase / 0.765
4gut FADLysine-specific histone demethylase 1B 1 0.763
1xpq FADPolyamine oxidase FMS1 / 0.761
4gus FADLysine-specific histone demethylase 1B 1 0.761
4u8i FDAUDP-galactopyranose mutase / 0.757
4u8j FDAUDP-galactopyranose mutase / 0.757
1z6l FADPolyamine oxidase FMS1 / 0.756
3qvr FADGlucose oxidase 1.1.3.4 0.753
3utg FDAUDP-galactopyranose mutase / 0.753
1dnc FADGlutathione reductase, mitochondrial 1.8.1.7 0.752
4dsg FADUncharacterized protein / 0.752
5fs9 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.751
3ka7 FADPutative oxidoreductase / 0.750
4u8p FDAUDP-galactopyranose mutase / 0.750
2c3d FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.747
3kkj FADRenalase / 0.746
3ukk FDAUDP-galactopyranose mutase / 0.746
4gde FDAUDP-galactopyranose mutase / 0.746
4rsl FADFructosyl peptide oxidase / 0.746
2h94 FADLysine-specific histone demethylase 1A 1 0.745
4fwe FADLysine-specific histone demethylase 1B 1 0.744
1jnr FADAdenylylsulfate reductase, subunit A (AprA) / 0.742
3cgb FADCoenzyme A disulfide reductase / 0.741
5i39 FADL-amino acid deaminase / 0.740
2yg5 FADPutrescine oxidase / 0.739
5er0 FADUncharacterized NAD(FAD)-dependent dehydrogenase / 0.739
4u8k FDAUDP-galactopyranose mutase / 0.737
2fje FADAdenylylsulfate reductase, subunit A (AprA) / 0.736
3k7m FAD6-hydroxy-L-nicotine oxidase / 0.736
4mo2 FDAUDP-galactopyranose mutase / 0.736
3cge FADCoenzyme A disulfide reductase / 0.735
3ntd FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.735
2igo FADPyranose 2-oxidase / 0.731
2yg6 FADPutrescine oxidase / 0.731
3lov FADProtoporphyrinogen oxidase / 0.731
4u8m FDAUDP-galactopyranose mutase / 0.731
1cf3 FADGlucose oxidase 1.1.3.4 0.730
4dsh FDAUncharacterized protein / 0.729
4bv6 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.727
1nhp FADNADH peroxidase 1.11.1.1 0.726
1npx FADNADH peroxidase 1.11.1.1 0.726
1e1k FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.725
3t37 FADPyridoxine 4-oxidase / 0.725
5fs7 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.725
1e6e FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.723
1i8t FADUDP-galactopyranose mutase 5.4.99.9 0.723
2fja FADAdenylylsulfate reductase, subunit A (AprA) / 0.721
1zx9 FADMercuric reductase 1.16.1.1 0.719
3cgc FADCoenzyme A disulfide reductase / 0.719
3cty FADProbable thioredoxin reductase / 0.719
1nhr FADNADH peroxidase 1.11.1.1 0.718
1d4d FADFumarate reductase flavoprotein subunit 1.3.5.4 0.717
2yg4 FADPutrescine oxidase / 0.717
3axb FADPutative oxidoreductase / 0.717
3r9u FADThioredoxin reductase / 0.716
1d4c FADFumarate reductase flavoprotein subunit 1.3.5.4 0.714
5fs8 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.714
4rpg FADUDP-galactopyranose mutase 5.4.99.9 0.713
1nhs FADNADH peroxidase 1.11.1.1 0.711
2bab FADPutative aminooxidase / 0.711
2x8h FADThioredoxin glutathione reductase / 0.711
3cgd FADCoenzyme A disulfide reductase / 0.711
3qvp FADGlucose oxidase 1.1.3.4 0.711
1jnz FADAdenylylsulfate reductase, subunit A (AprA) / 0.708
2ylx FADPhenylacetone monooxygenase 1.14.13.92 0.708
3lsi FADPyranose 2-oxidase / 0.708
2bi7 FADUDP-galactopyranose mutase 5.4.99.9 0.707
1nhq FADNADH peroxidase 1.11.1.1 0.706
2bac FADPutative aminooxidase / 0.706
2yg3 FADPutrescine oxidase / 0.705
4jdr FADDihydrolipoyl dehydrogenase 1.8.1.4 0.705
4jnq FDAThioredoxin reductase / 0.705
1wam FADUDP-galactopyranose mutase 5.4.99.9 0.704
3k4c FADPyranose 2-oxidase / 0.704
2v3a FADRubredoxin-NAD(+) reductase 1.18.1.1 0.703
3ad9 FADSubunit beta of sarcosine oxidase / 0.703
4jq9 FADDihydrolipoyl dehydrogenase / 0.702
4opd FDAConserved Archaeal protein / 0.702
2c7g FADNADPH-ferredoxin reductase FprA 1.18.1.2 0.701
2eq9 FADDihydrolipoyl dehydrogenase / 0.700
1joa FADNADH peroxidase 1.11.1.1 0.699
1tdn FADL-amino-acid oxidase 1.4.3.2 0.699
1lqu FADNADPH-ferredoxin reductase FprA 1.18.1.2 0.697
3gwd FADCyclohexanone monooxygenase / 0.696
3zdn FADMonoamine oxidase N 1.4.3.4 0.696
2c3c FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.695
3kyb FADUDP-galactopyranose mutase 5.4.99.9 0.695
3nn6 FB06-hydroxy-L-nicotine oxidase / 0.695
1pdh FASp-hydroxybenzoate hydroxylase / 0.694
1reo FADL-amino-acid oxidase 1.4.3.2 0.694
4bk3 FADProbable salicylate monooxygenase / 0.694
4tm3 FADKtzI / 0.694
1f3p FADFerredoxin reductase / 0.693
2gmh FADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial 1.5.5.1 0.693
3bg7 FADPyranose 2-oxidase / 0.693
1gal FADGlucose oxidase 1.1.3.4 0.692
1k0l FADp-hydroxybenzoate hydroxylase / 0.692
1m6i FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.692
1tdo FADL-amino-acid oxidase 1.4.3.2 0.692
3uox FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase 1.14.13.160 0.691
4cnj FADL-amino acid oxidase / 0.691
5buk FADFADH2-dependent halogenase / 0.691
1d7l RFLp-hydroxybenzoate hydroxylase / 0.690
1mo9 FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.690
2b9w FADPutative aminooxidase / 0.690
2b9x FADPutative aminooxidase / 0.690
2bi8 FADUDP-galactopyranose mutase 5.4.99.9 0.690
2yg7 FADPutrescine oxidase / 0.690
3ict FADCoenzyme A disulfide reductase / 0.690
3pl8 FADPyranose 2-oxidase / 0.690
5ez7 FADProbable FAD-dependent oxidoreductase PA4991 / 0.690
1gpe FADGlucose oxidase 1.1.3.4 0.689
2eq8 FADDihydrolipoyl dehydrogenase / 0.689
1rp0 AHZThiamine thiazole synthase, chloroplastic / 0.688
2gr0 FADFerredoxin reductase / 0.688
3ukk FADUDP-galactopyranose mutase / 0.688
4ynt FDAGlucose oxidase, putative / 0.687
1gra FADGlutathione reductase, mitochondrial 1.8.1.7 0.686
4mo2 FADUDP-galactopyranose mutase / 0.686
5fs6 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.686
1y56 ATPUncharacterized protein / 0.685
1y56 FAD382aa long hypothetical sarcosine oxidase / 0.685
2ba9 FADPutative aminooxidase / 0.685
2q0l FADThioredoxin reductase 1.8.1.9 0.685
4guu FA9Lysine-specific histone demethylase 1B 1 0.685
4h4u FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.685
4rph FADUDP-galactopyranose mutase 5.4.99.9 0.685
4x9m FADUncharacterized protein MG039 homolog / 0.685
3icr FADCoenzyme A disulfide reductase / 0.684
4mih FADPyranose 2-oxidase 1.1.3.10 0.684
1qo8 FADFumarate reductase flavoprotein subunit / 0.683
3grs FADGlutathione reductase, mitochondrial 1.8.1.7 0.683
4j57 FADThioredoxin reductase 2 1.8.1.9 0.683
4opc FDAConserved Archaeal protein / 0.682
4wct FADFructosyl amine:oxygen oxidoreductase / 0.682
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.681
1v59 FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.681
4h4r FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.681
2q7v FADThioredoxin reductase / 0.680
3mj4 FADUDP-galactopyranose mutase / 0.680
3sz0 FADSulfide-quinone reductase / 0.680
3uov FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase 1.14.13.160 0.680
4em3 FADCoenzyme A disulfide reductase / 0.680
4h4x FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.680
3rp8 FADFAD-dependent urate hydroxylase / 0.679
2fjd SFDAdenylylsulfate reductase, subunit A (AprA) / 0.678
3oz2 FADDigeranylgeranylglycerophospholipid reductase / 0.678
3uoy FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase 1.14.13.160 0.678
4fx9 FADCoenzyme A disulfide reductase 1.8.1.14 0.678
4k2x FADPolyketide oxygenase/hydroxylase / 0.678
2b9y FADPutative aminooxidase / 0.677
4bjz FADProbable salicylate monooxygenase / 0.677
4hsu FADLysine-specific histone demethylase 1B 1 0.677
4j33 FADKynurenine 3-monooxygenase / 0.677
2gqw FADFerredoxin reductase / 0.676
2gr3 FADFerredoxin reductase / 0.676
3atq FDAConserved Archaeal protein / 0.676
1grb FADGlutathione reductase, mitochondrial 1.8.1.7 0.675
3ada NADSubunit alpha of sarocosine oxidase / 0.675
4cnk FADL-amino acid oxidase / 0.675
4udq FAD5-(hydroxymethyl)furfural oxidase / 0.675
1tdk FADL-amino-acid oxidase 1.4.3.2 0.674
3gsi FADDimethylglycine oxidase 1.5.3.10 0.674
1i2b NADUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.673
2hko FADLysine-specific histone demethylase 1A 1 0.673
2vyn NADGlyceraldehyde-3-phosphate dehydrogenase A / 0.673
4h4s FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.673
4la1 FADThioredoxin glutathione reductase / 0.673
2apg FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.672
4h4y FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.672
4tm4 FDAKtzI / 0.672
1w4x FADPhenylacetone monooxygenase 1.14.13.92 0.671
4h4t FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.671
4h4v FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.671
4j36 FADKynurenine 3-monooxygenase / 0.671
1bwc FADGlutathione reductase, mitochondrial 1.8.1.7 0.670
2eq7 NADDihydrolipoyl dehydrogenase / 0.670
2xvi FADPutative flavin-containing monooxygenase / 0.670
3lzw FADFerredoxin--NADP reductase 2 1.18.1.2 0.670
4gcm FADThioredoxin reductase 1.8.1.9 0.670
4j2w FADKynurenine 3-monooxygenase / 0.670
4uir FADOleate hydratase 4.2.1.53 0.670
1h7w FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.669
3all FAD2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase / 0.669
3lzx FADFerredoxin--NADP reductase 2 1.18.1.2 0.669
4eqw FADCoenzyme A disulfide reductase / 0.669
4gur FADLysine-specific histone demethylase 1B 1 0.669
4x9n FADUncharacterized protein MG039 homolog / 0.669
2cdu FADNADH oxidase / 0.668
4cy8 FDA2-hydroxybiphenyl-3-monooxygenase / 0.668
4i58 FADCyclohexylamine Oxidase / 0.668
2zbw FADFerredoxin--NADP reductase / 0.667
3dme FADPutative conserved exported protein / 0.667
1q1r FADPutidaredoxin reductase 1.18.1.5 0.666
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.666
2eq6 FADDihydrolipoyl dehydrogenase / 0.665
4tlx FDAKtzI / 0.665
4ykg FADAlkyl hydroperoxide reductase subunit F 1.8.1 0.665
2ign FADPyranose 2-oxidase / 0.664
2nvk FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.664
3vqr FADPutative oxidoreductase / 0.664
1gte FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.663
2fjb SFDAdenylylsulfate reductase, subunit A (AprA) / 0.663
2rgj FADFlavin-containing monooxygenase / 0.663
4a99 FADTetX family tetracycline inactivation enzyme / 0.663
4yac NAIC alpha-dehydrogenase / 0.663
2qcu FADAerobic glycerol-3-phosphate dehydrogenase 1.1.5.3 0.662
4yjd FADD-amino-acid oxidase 1.4.3.3 0.662
4yry FADGlutamate synthase, beta subunit / 0.662
5j60 FADThioredoxin reductase / 0.662
1djq ADPTrimethylamine dehydrogenase 1.5.8.2 0.661
1ijh FADCholesterol oxidase 1.1.3.6 0.661
1onf FADGlutathione reductase 1.8.1.7 0.661
2q0k FADThioredoxin reductase 1.8.1.9 0.661
3nt6 FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.661
4eqs FADCoenzyme A disulfide reductase / 0.661
4ysh FADGlycine oxidase / 0.661
3gdp FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.660
4z24 FADPutative GMC-type oxidoreductase R135 1 0.660
1ps9 FAD2,4-dienoyl-CoA reductase 1.3.1.34 0.659
2x3n FADProbable FAD-dependent monooxygenase / 0.659
3k30 ADPHistamine dehydrogenase / 0.659
4h4w FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.659
1fl2 FADAlkyl hydroperoxide reductase subunit F 1.8.1 0.658
2yvf FADFerredoxin reductase / 0.658
4c3y FAD3-ketosteroid dehydrogenase / 0.658
4h4p FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.658
4h50 FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.658
5eb5 FAD(R)-mandelonitrile lyase 1 4.1.2.10 0.658
2o06 MTASpermidine synthase 2.5.1.16 0.657
3ept FDAPutative FAD-monooxygenase / 0.657
3gd3 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.657
3int FDAUDP-galactopyranose mutase 5.4.99.9 0.657
1nqa NADGlyceraldehyde-3-phosphate dehydrogenase / 0.656
1q1w FADPutidaredoxin reductase 1.18.1.5 0.656
2eq7 FADDihydrolipoyl dehydrogenase / 0.656
3rha FDAPutrescine oxidase / 0.656
4ocg FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.656
4p8r NADGlyceraldehyde-3-phosphate dehydrogenase / 0.656
5hhf FDAUDP-galactopyranose mutase / 0.656
1kf6 FADFumarate reductase flavoprotein subunit 1.3.5.4 0.655
2vou FAD2,6-dihydroxypyridine 3-monooxygenase 1.14.13.10 0.655
4em4 FADCoenzyme A disulfide reductase / 0.655
1d7y FADFerredoxin reductase / 0.654
3djj FADGlutathione reductase, mitochondrial 1.8.1.7 0.654
3nta FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.654
4bur FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.654
1ebd FADDihydrolipoyl dehydrogenase 1.8.1.4 0.653
2tpr FADTrypanothione reductase 1.8.1.12 0.653
3dk4 FADGlutathione reductase, mitochondrial 1.8.1.7 0.653
4opt FDAConserved Archaeal protein / 0.653
3urh FADDihydrolipoyl dehydrogenase / 0.652
4g9k FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial 1.6.5.9 0.652
4rpj FADUDP-galactopyranose mutase 5.4.99.9 0.652
1grh FADGlutathione reductase, mitochondrial 1.8.1.7 0.651
1gsn FADGlutathione reductase, mitochondrial 1.8.1.7 0.651
2hqm FADGlutathione reductase 1.8.1.7 0.651
3dk9 FADGlutathione reductase, mitochondrial 1.8.1.7 0.651
4opg FDAConserved Archaeal protein / 0.651
1e1n FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.650
1zk7 FADMercuric reductase 1.16.1.1 0.650
3lsh FADPyranose 2-oxidase / 0.650
4eqr FADCoenzyme A disulfide reductase / 0.650