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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
4c3x FAD 3-ketosteroid dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity
Align
4c3x FAD3-ketosteroid dehydrogenase / 1.714
4c3y FAD3-ketosteroid dehydrogenase / 1.591
4at0 FADPossible succinate dehydrogenase / 0.985
3t37 FADPyridoxine 4-oxidase / 0.803
1qo8 FADFumarate reductase flavoprotein subunit / 0.799
1c0l FADD-amino-acid oxidase 1.4.3.3 0.789
2i0z FADNAD(FAD)-utilizing dehydrogenases / 0.786
4fwe FADLysine-specific histone demethylase 1B 1 0.786
1ryi FADGlycine oxidase 1.4.3.19 0.782
1y56 FAD382aa long hypothetical sarcosine oxidase / 0.782
1ng4 FADGlycine oxidase 1.4.3.19 0.780
1ng3 FADGlycine oxidase 1.4.3.19 0.778
2du8 FADD-amino-acid oxidase 1.4.3.3 0.776
3sm8 FNKFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.772
3pl8 FADPyranose 2-oxidase / 0.765
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.760
2fje FADAdenylylsulfate reductase, subunit A (AprA) / 0.760
3lsh FADPyranose 2-oxidase / 0.760
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.760
4opd FDAConserved Archaeal protein / 0.753
2q7v FADThioredoxin reductase / 0.752
1knp FADL-aspartate oxidase 1.4.3.16 0.751
1d4d FADFumarate reductase flavoprotein subunit 1.3.5.4 0.750
3lsi FADPyranose 2-oxidase / 0.750
3m0o FADMonomeric sarcosine oxidase 1.5.3.1 0.749
1h83 FADPolyamine oxidase 1.5.3.14 0.748
3atq FDAConserved Archaeal protein / 0.748
1knr FADL-aspartate oxidase 1.4.3.16 0.747
3gdp FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.746
3if9 FADGlycine oxidase 1.4.3.19 0.746
4xbf FADLysine-specific histone demethylase 1A 1 0.746
1c0k FADD-amino-acid oxidase 1.4.3.3 0.745
4x9n FADUncharacterized protein MG039 homolog / 0.745
1cf3 FADGlucose oxidase 1.1.3.4 0.739
2yg7 FADPutrescine oxidase / 0.737
3k7m FAD6-hydroxy-L-nicotine oxidase / 0.737
3ad9 FADSubunit beta of sarcosine oxidase / 0.735
1dnc FADGlutathione reductase, mitochondrial 1.8.1.7 0.734
1kif FADD-amino-acid oxidase 1.4.3.3 0.734
2fjd SFDAdenylylsulfate reductase, subunit A (AprA) / 0.734
2y48 FADLysine-specific histone demethylase 1A 1 0.734
3znp FADD-amino-acid oxidase 1.4.3.3 0.734
4k5r FADOxygenase / 0.734
4z26 FADPutative GMC-type oxidoreductase R135 1 0.734
1e1n FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.731
3m12 FADMonomeric sarcosine oxidase 1.5.3.1 0.731
4ysh FADGlycine oxidase / 0.731
3klj FADNADH-rubredoxin oxidoreductase 1.18.1.1 0.730
4bk3 FADProbable salicylate monooxygenase / 0.730
4gut FADLysine-specific histone demethylase 1B 1 0.730
2c4c FAD[F-actin]-methionine sulfoxide oxidase MICAL1 1.14.13 0.729
3bg7 FADPyranose 2-oxidase / 0.729
4gdp FADPolyamine oxidase FMS1 / 0.729
4em4 FADCoenzyme A disulfide reductase / 0.728
1zmd FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.727
3atr FDAConserved Archaeal protein / 0.727
3m13 FADMonomeric sarcosine oxidase 1.5.3.1 0.727
4mih FADPyranose 2-oxidase 1.1.3.10 0.727
1xpq FADPolyamine oxidase FMS1 / 0.726
2hko FADLysine-specific histone demethylase 1A 1 0.726
3gsi FADDimethylglycine oxidase 1.5.3.10 0.724
4opc FDAConserved Archaeal protein / 0.724
3bi2 FADPolyamine oxidase FMS1 / 0.723
3ic9 FADPutative dihydrolipoamide dehydrogenase / 0.723
3nlc FADUncharacterized protein / 0.723
4mok FADPyranose 2-oxidase / 0.722
2yg4 FADPutrescine oxidase / 0.721
5j60 FADThioredoxin reductase / 0.721
1ve9 FADD-amino-acid oxidase 1.4.3.3 0.720
2dw4 FADLysine-specific histone demethylase 1A 1 0.720
4kx6 FADFumarate reductase flavoprotein subunit 1.3.5.4 0.720
4yjd FADD-amino-acid oxidase 1.4.3.3 0.720
1onf FADGlutathione reductase 1.8.1.7 0.719
3gyi FADCholesterol oxidase 1.1.3.6 0.719
4udq FAD5-(hydroxymethyl)furfural oxidase / 0.719
1d4c FADFumarate reductase flavoprotein subunit 1.3.5.4 0.718
4opg FDAConserved Archaeal protein / 0.718
1tdo FADL-amino-acid oxidase 1.4.3.2 0.717
3cuk FADD-amino-acid oxidase 1.4.3.3 0.717
2ign FADPyranose 2-oxidase / 0.716
2uxx FAJLysine-specific histone demethylase 1A 1 0.716
2vvl FADMonoamine oxidase N 1.4.3.4 0.716
5l3d FADLysine-specific histone demethylase 1A 1 0.716
3qvr FADGlucose oxidase 1.1.3.4 0.715
3urh FADDihydrolipoyl dehydrogenase / 0.715
3ish FADThioredoxin reductase 1.8.1.9 0.714
3lov FADProtoporphyrinogen oxidase / 0.714
1gpe FADGlucose oxidase 1.1.3.4 0.713
4fwj FADLysine-specific histone demethylase 1B 1 0.713
1xdi FADNAD(P)H dehydrogenase (quinone) / 0.712
3sfe FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.712
4ynt FDAGlucose oxidase, putative / 0.712
1h81 FADPolyamine oxidase 1.5.3.14 0.711
4opl FDAConserved Archaeal protein / 0.711
2yg3 FADPutrescine oxidase / 0.709
4opu FDAConserved Archaeal protein / 0.709
1gal FADGlucose oxidase 1.1.3.4 0.708
1yy5 FADPolyamine oxidase FMS1 / 0.708
2fjb SFDAdenylylsulfate reductase, subunit A (AprA) / 0.708
2yg5 FADPutrescine oxidase / 0.708
4gus FADLysine-specific histone demethylase 1B 1 0.708
4rsl FADFructosyl peptide oxidase / 0.708
3ka7 FADPutative oxidoreductase / 0.707
1ijh FADCholesterol oxidase 1.1.3.6 0.706
1rsg FADPolyamine oxidase FMS1 / 0.706
3bi5 FADPolyamine oxidase FMS1 / 0.706
3nyc FADFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.706
4bjz FADProbable salicylate monooxygenase / 0.705
4hsu FADLysine-specific histone demethylase 1B 1 0.705
4opt FDAConserved Archaeal protein / 0.705
3k4c FADPyranose 2-oxidase / 0.704
4cnj FADL-amino acid oxidase / 0.704
4gur FADLysine-specific histone demethylase 1B 1 0.704
4x9m FADUncharacterized protein MG039 homolog / 0.704
5c2t FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.703
5hxw FADL-amino acid deaminase / 0.703
4yry FADGlutamate synthase, beta subunit / 0.702
1b4v FADCholesterol oxidase 1.1.3.6 0.701
2h94 FADLysine-specific histone demethylase 1A 1 0.701
3b6d FAECholesterol oxidase 1.1.3.6 0.701
3cgd FADCoenzyme A disulfide reductase / 0.701
2fja FADAdenylylsulfate reductase, subunit A (AprA) / 0.700
2gmh FADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial 1.5.5.1 0.700
3cnj FADCholesterol oxidase 1.1.3.6 0.700
2iid FADL-amino-acid oxidase 1.4.3.2 0.699
2pia FMNPhthalate dioxygenase reductase / 0.699
3vqr FADPutative oxidoreductase / 0.699
1i0s FMNFerric-chelate reductase (NAD(P)H) / 0.698
1lpf FADDihydrolipoyl dehydrogenase 1.8.1.4 0.698
1n4v FADCholesterol oxidase 1.1.3.6 0.698
3cn8 FADPolyamine oxidase FMS1 / 0.698
4u2t FADCholesterol oxidase 1.1.3.6 0.698
2gew FADCholesterol oxidase 1.1.3.6 0.697
2iw5 FADLysine-specific histone demethylase 1A 1 0.697
1k0l FADp-hydroxybenzoate hydroxylase / 0.696
3cnd FADPolyamine oxidase FMS1 / 0.695
3zdn FADMonoamine oxidase N 1.4.3.4 0.695
4jq9 FADDihydrolipoyl dehydrogenase / 0.695
2b9y FADPutative aminooxidase / 0.694
1b8s FADCholesterol oxidase 1.1.3.6 0.693
1tdn FADL-amino-acid oxidase 1.4.3.2 0.692
4xwr FADCholesterol oxidase 1.1.3.6 0.692
1jeh FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.691
2eq7 FADDihydrolipoyl dehydrogenase / 0.691
4b67 FADL-ornithine N(5)-monooxygenase / 0.691
4wct FADFructosyl amine:oxygen oxidoreductase / 0.691
5eb5 FAD(R)-mandelonitrile lyase 1 4.1.2.10 0.691
1z6l FADPolyamine oxidase FMS1 / 0.690
3djg FADGlutathione reductase, mitochondrial 1.8.1.7 0.690
4hj3 FMNLOV protein / 0.690
5dbj FADFADH2-dependent halogenase PltA / 0.690
1n4u FAECholesterol oxidase 1.1.3.6 0.689
3lsm SFDPyranose 2-oxidase / 0.689
2eq8 FADDihydrolipoyl dehydrogenase / 0.688
4aos FADSteroid monooxygenase / 0.688
5ez7 FADProbable FAD-dependent oxidoreductase PA4991 / 0.688
3gyj FADCholesterol oxidase 1.1.3.6 0.687
3nn6 FB06-hydroxy-L-nicotine oxidase / 0.687
3sqp FADGlutathione reductase, mitochondrial 1.8.1.7 0.687
4u2l SFDCholesterol oxidase 1.1.3.6 0.687
1jnr FADAdenylylsulfate reductase, subunit A (AprA) / 0.685
2c3c FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.685
2qae FADDihydrolipoyl dehydrogenase 1.8.1.4 0.685
3jsk AHZThiamine thiazole synthase / 0.685
3lad FADDihydrolipoyl dehydrogenase / 0.685
4gcm FADThioredoxin reductase 1.8.1.9 0.685
4opi FDAConserved Archaeal protein / 0.685
4u2s FDACholesterol oxidase 1.1.3.6 0.685
4udr FAD5-(hydroxymethyl)furfural oxidase / 0.685
4xxg FADCholesterol oxidase 1.1.3.6 0.685
1bwc FADGlutathione reductase, mitochondrial 1.8.1.7 0.684
4hia FMNLOV protein / 0.684
1tdk FADL-amino-acid oxidase 1.4.3.2 0.683
2nvk FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.683
2qa2 FADPolyketide oxygenase CabE / 0.683
3cgb FADCoenzyme A disulfide reductase / 0.683
1reo FADL-amino-acid oxidase 1.4.3.2 0.682
1zk7 FADMercuric reductase 1.16.1.1 0.682
2ywl FADThioredoxin reductase related protein / 0.682
3int FDAUDP-galactopyranose mutase 5.4.99.9 0.682
4d7e FADPutative lysine-N-oxygenase / 0.682
2iyi FMNAppA, antirepressor of ppsR, sensor of blue light / 0.681
2qcu FADAerobic glycerol-3-phosphate dehydrogenase 1.1.5.3 0.681
3cgc FADCoenzyme A disulfide reductase / 0.681
1cc2 FADCholesterol oxidase 1.1.3.6 0.680
1n1p FADCholesterol oxidase 1.1.3.6 0.680
1n4w FADCholesterol oxidase 1.1.3.6 0.680
3cox FADCholesterol oxidase 1.1.3.6 0.679
4fwf FADLysine-specific histone demethylase 1B 1 0.678
1yqz FADCoenzyme A disulfide reductase / 0.677
2eq6 FADDihydrolipoyl dehydrogenase / 0.677
3f8d FADNADH oxidase/thioredoxin reductase / 0.676
4ech FADPolyamine oxidase FMS1 / 0.676
2yls FADPhenylacetone monooxygenase 1.14.13.92 0.675
4a5l FADThioredoxin reductase / 0.675
4jdr FADDihydrolipoyl dehydrogenase 1.8.1.4 0.675
2yg6 FADPutrescine oxidase / 0.674
3jqr FADFerredoxin--NADP reductase, apicoplast / 0.674
3ute FADUDP-galactopyranose mutase / 0.674
4ntd FADThioredoxin reductase / 0.674
1grb FADGlutathione reductase, mitochondrial 1.8.1.7 0.673
2gv8 FADThiol-specific monooxygenase 1.14.13 0.673
2vou FAD2,6-dihydroxypyridine 3-monooxygenase 1.14.13.10 0.673
3k4n FADPyranose 2-oxidase / 0.673
4z24 FADPutative GMC-type oxidoreductase R135 1 0.673
5i39 FADL-amino acid deaminase / 0.673
1cbo FADCholesterol oxidase 1.1.3.6 0.672
1f8r FADL-amino-acid oxidase 1.4.3.2 0.672
2b9x FADPutative aminooxidase / 0.672
2igo FADPyranose 2-oxidase / 0.672
3ict FADCoenzyme A disulfide reductase / 0.672
3kve FADL-amino-acid oxidase / 0.672
3rp8 FADFAD-dependent urate hydroxylase / 0.672
3sgl FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.672
4ap3 FADSteroid monooxygenase / 0.672
4em3 FADCoenzyme A disulfide reductase / 0.672
1gre FADGlutathione reductase, mitochondrial 1.8.1.7 0.671
1yrx FMNAppA protein / 0.671
2eq9 FADDihydrolipoyl dehydrogenase / 0.671
3djj FADGlutathione reductase, mitochondrial 1.8.1.7 0.671
3dk4 FADGlutathione reductase, mitochondrial 1.8.1.7 0.671
3nix FADFlavoprotein/dehydrogenase / 0.670
4b65 FADL-ornithine N(5)-monooxygenase / 0.670
2ba9 FADPutative aminooxidase / 0.669
3lcc SAHThiocyanate methyltransferase 1 / 0.669
3pvc FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.669
4yus FMNFamily 3 adenylate cyclase / 0.669
1cjc FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.668
2bac FADPutative aminooxidase / 0.668
2cdu ADPNADH oxidase / 0.668
2yr5 FADPhenylalanine 2-monooxygenase precursor 1.13.12.9 0.668
3ean FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.668
3ics FADCoenzyme A disulfide reductase / 0.668
1kf6 FADFumarate reductase flavoprotein subunit 1.3.5.4 0.667
2wba FADTrypanothione reductase 1.8.1.12 0.667
4ybn FADFlavin-nucleotide-binding protein / 0.667
4ytn FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.667
1zx9 FADMercuric reductase 1.16.1.1 0.666
2gh5 FADGlutathione reductase, mitochondrial 1.8.1.7 0.666
2r0c FADPutative FAD-monooxygenase / 0.666
2z6i FMN2-nitropropane dioxygenase / 0.666
3ntd FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.666
1mxt FAECholesterol oxidase 1.1.3.6 0.665
4emw FADCoenzyme A disulfide reductase / 0.665
4y9l FADAcyl-CoA dehydrogenase family member 11 / 0.665
5buk FADFADH2-dependent halogenase / 0.665
2gqw FADFerredoxin reductase / 0.664
3cty FADProbable thioredoxin reductase / 0.664
3uoz FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase 1.14.13.160 0.664
4hmw FMNPyridoxamine 5'-phosphate oxidase / 0.664
2jb2 FADL-amino acid oxidase / 0.663
2xdo FADTetX family tetracycline inactivation enzyme / 0.663
3kkj FADRenalase / 0.663
3r9u FADThioredoxin reductase / 0.663
3v76 FDAUncharacterized protein / 0.663
4dna FADProbable glutathione reductase / 0.663
4hj4 FMNLOV protein / 0.663
1ep3 FADDihydroorotate dehydrogenase B (NAD(+)), electron transfer subunit / 0.662
2r9z FADGlutathione amide reductase / 0.662
1zmc FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.661
4j33 FADKynurenine 3-monooxygenase / 0.661
2zz0 FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.660
4dsh FDAUncharacterized protein / 0.660
1h7w FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.659
1q1w FADPutidaredoxin reductase 1.18.1.5 0.659
2b9w FADPutative aminooxidase / 0.659
2rgh FADAlpha-Glycerophosphate Oxidase / 0.659
3oz2 FADDigeranylgeranylglycerophospholipid reductase / 0.659
3qj4 FADRenalase / 0.659
4lii FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.659
5eow FAD6-hydroxynicotinate 3-monooxygenase 1.14.13.114 0.659
1geu FADGlutathione reductase 1.8.1.7 0.658
1gte FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.658
4a65 FADThioredoxin reductase / 0.658
4iv6 FDAIsovaleryl-CoA dehydrogenase / 0.658
3ada NADSubunit alpha of sarocosine oxidase / 0.657
3c4a FADProtodeoxyviolaceinate monooxygenase 1 0.657
3dme FADPutative conserved exported protein / 0.657
3rha FDAPutrescine oxidase / 0.657
2apg FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.656
3ept FDAPutative FAD-monooxygenase / 0.656
3gfx FMNUncharacterized protein / 0.656
4u8k FDAUDP-galactopyranose mutase / 0.656
1feb FADTrypanothione reductase 1.8.1.12 0.655
2bkj FMNNADPH-flavin oxidoreductase / 0.655
3hjk FADVivid PAS protein VVD / 0.655
3k30 ADPHistamine dehydrogenase / 0.655
3p9u FADTetX family tetracycline inactivation enzyme / 0.655
1zy8 FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.654
2a1u FADElectron transfer flavoprotein subunit alpha, mitochondrial / 0.654
3q9t FAYUncharacterized protein / 0.654
1fec FADTrypanothione reductase 1.8.1.12 0.653
1gsn FADGlutathione reductase, mitochondrial 1.8.1.7 0.653
2c3d FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.653
2x8h FADThioredoxin glutathione reductase / 0.653
2xlp FADPutative flavin-containing monooxygenase / 0.653
3g07 SAM7SK snRNA methylphosphate capping enzyme 2.1.1 0.653
4d5g FADCyclohexane-1,2-dione hydrolase 3.7.1.11 0.653
4kpr FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.653
1d7l RFLp-hydroxybenzoate hydroxylase / 0.652
2bab FADPutative aminooxidase / 0.652
2cvj FADThioredoxin reductase related protein / 0.652
4b63 FADL-ornithine N(5)-monooxygenase / 0.652
4rek FADCholesterol oxidase 1.1.3.6 0.652
1mok FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.651
2aqj FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.651
2wow FADTrypanothione reductase / 0.651
3cge FADCoenzyme A disulfide reductase / 0.651
3nta FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.651
4nte FADDepH / 0.651
1efv FADElectron transfer flavoprotein subunit alpha, mitochondrial / 0.650
1f8w FADNADH peroxidase 1.11.1.1 0.650
1jnz FADAdenylylsulfate reductase, subunit A (AprA) / 0.650
2f5z FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.650
3dk8 FADGlutathione reductase, mitochondrial 1.8.1.7 0.650
4j2w FADKynurenine 3-monooxygenase / 0.650
4ldk FADFAD-linked sulfhydryl oxidase ALR 1.8.3.2 0.650
4qi4 FADCellobiose dehydrogenase / 0.650