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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
1c0k 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
1c0k FADD-amino-acid oxidase 1.4.3.3 1.646
1c0l FADD-amino-acid oxidase 1.4.3.3 1.561
2du8 FADD-amino-acid oxidase 1.4.3.3 1.046
4yjd FADD-amino-acid oxidase 1.4.3.3 1.010
3vqr FADPutative oxidoreductase / 1.001
1ryi FADGlycine oxidase 1.4.3.19 0.991
1ng4 FADGlycine oxidase 1.4.3.19 0.970
3axb FADPutative oxidoreductase / 0.963
3nyc FADFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.945
1kif FADD-amino-acid oxidase 1.4.3.3 0.940
1ng3 FADGlycine oxidase 1.4.3.19 0.934
3sm8 FNKFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.917
3znp FADD-amino-acid oxidase 1.4.3.3 0.914
2rgh FADAlpha-Glycerophosphate Oxidase / 0.888
3gsi FADDimethylglycine oxidase 1.5.3.10 0.883
3if9 FADGlycine oxidase 1.4.3.19 0.864
5c2t FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.857
1ve9 FADD-amino-acid oxidase 1.4.3.3 0.855
3cuk FADD-amino-acid oxidase 1.4.3.3 0.854
2e48 FADD-amino-acid oxidase 1.4.3.3 0.850
5i39 FADL-amino acid deaminase / 0.848
3pvc FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.838
4x9n FADUncharacterized protein MG039 homolog / 0.829
4c3y FAD3-ketosteroid dehydrogenase / 0.821
4wct FADFructosyl amine:oxygen oxidoreductase / 0.821
4x9m FADUncharacterized protein MG039 homolog / 0.815
5c3j FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.814
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.806
3sfd FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.804
3sgl FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.804
3rp8 FADFAD-dependent urate hydroxylase / 0.802
3sfe FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.800
3dme FADPutative conserved exported protein / 0.799
1y56 FAD382aa long hypothetical sarcosine oxidase / 0.793
3lsi FADPyranose 2-oxidase / 0.788
4cy8 FDA2-hydroxybiphenyl-3-monooxygenase / 0.787
1kf6 FADFumarate reductase flavoprotein subunit 1.3.5.4 0.785
1d4c FADFumarate reductase flavoprotein subunit 1.3.5.4 0.781
2bac FADPutative aminooxidase / 0.780
3gyj FADCholesterol oxidase 1.1.3.6 0.780
4ysh FADGlycine oxidase / 0.779
5ez7 FADProbable FAD-dependent oxidoreductase PA4991 / 0.776
4yxd FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.775
1k0j FADp-hydroxybenzoate hydroxylase / 0.773
3m13 FADMonomeric sarcosine oxidase 1.5.3.1 0.773
1knp FADL-aspartate oxidase 1.4.3.16 0.769
2b9y FADPutative aminooxidase / 0.769
2rgo FADAlpha-Glycerophosphate Oxidase / 0.769
4k5r FADOxygenase / 0.769
1b4v FADCholesterol oxidase 1.1.3.6 0.767
4u2s FDACholesterol oxidase 1.1.3.6 0.767
4u2t FADCholesterol oxidase 1.1.3.6 0.765
1n4u FAECholesterol oxidase 1.1.3.6 0.764
3cnj FADCholesterol oxidase 1.1.3.6 0.764
3gyi FADCholesterol oxidase 1.1.3.6 0.764
4kx6 FADFumarate reductase flavoprotein subunit 1.3.5.4 0.761
4rsl FADFructosyl peptide oxidase / 0.758
5hxw FADL-amino acid deaminase / 0.758
3dk8 FADGlutathione reductase, mitochondrial 1.8.1.7 0.757
1b8s FADCholesterol oxidase 1.1.3.6 0.755
2ign FADPyranose 2-oxidase / 0.755
1qo8 FADFumarate reductase flavoprotein subunit / 0.754
4xwr FADCholesterol oxidase 1.1.3.6 0.754
1xpq FADPolyamine oxidase FMS1 / 0.753
3lsh FADPyranose 2-oxidase / 0.753
4mih FADPyranose 2-oxidase 1.1.3.10 0.753
2gew FADCholesterol oxidase 1.1.3.6 0.749
2yg6 FADPutrescine oxidase / 0.749
4at0 FADPossible succinate dehydrogenase / 0.749
1cc2 FADCholesterol oxidase 1.1.3.6 0.748
3pl8 FADPyranose 2-oxidase / 0.747
4ytn FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.747
3m12 FADMonomeric sarcosine oxidase 1.5.3.1 0.746
3m0o FADMonomeric sarcosine oxidase 1.5.3.1 0.745
4c3x FAD3-ketosteroid dehydrogenase / 0.745
2qcu FADAerobic glycerol-3-phosphate dehydrogenase 1.1.5.3 0.744
4mok FADPyranose 2-oxidase / 0.744
4rek FADCholesterol oxidase 1.1.3.6 0.744
4opt FDAConserved Archaeal protein / 0.740
2b9x FADPutative aminooxidase / 0.739
3k7m FAD6-hydroxy-L-nicotine oxidase / 0.739
1f8w FADNADH peroxidase 1.11.1.1 0.738
2bab FADPutative aminooxidase / 0.736
4k2x FADPolyketide oxygenase/hydroxylase / 0.736
3k4c FADPyranose 2-oxidase / 0.734
4j36 FADKynurenine 3-monooxygenase / 0.734
2gmh FADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial 1.5.5.1 0.732
3gdp FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.731
4hsu FADLysine-specific histone demethylase 1B 1 0.731
2y48 FADLysine-specific histone demethylase 1A 1 0.730
4xxg FADCholesterol oxidase 1.1.3.6 0.729
4fwe FADLysine-specific histone demethylase 1B 1 0.728
4gut FADLysine-specific histone demethylase 1B 1 0.728
4o5q FADAlkyl hydroperoxide reductase subunit F 1.8.1 0.728
4j33 FADKynurenine 3-monooxygenase / 0.726
2h94 FADLysine-specific histone demethylase 1A 1 0.725
3lsm SFDPyranose 2-oxidase / 0.723
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.722
3k4n FADPyranose 2-oxidase / 0.720
2aqj FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.719
3aeb FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.718
3ab1 FADFerredoxin--NADP reductase 1.18.1.2 0.715
3k7t FAD6-hydroxy-L-nicotine oxidase / 0.715
1ijh FADCholesterol oxidase 1.1.3.6 0.714
2dw4 FADLysine-specific histone demethylase 1A 1 0.714
2gh5 FADGlutathione reductase, mitochondrial 1.8.1.7 0.714
2yg4 FADPutrescine oxidase / 0.714
3ept FDAPutative FAD-monooxygenase / 0.714
4dsh FDAUncharacterized protein / 0.714
3cty FADProbable thioredoxin reductase / 0.713
3djj FADGlutathione reductase, mitochondrial 1.8.1.7 0.713
4xbf FADLysine-specific histone demethylase 1A 1 0.713
3ka7 FADPutative oxidoreductase / 0.712
1yy5 FADPolyamine oxidase FMS1 / 0.710
2fje FADAdenylylsulfate reductase, subunit A (AprA) / 0.710
2gr3 FADFerredoxin reductase / 0.710
2fjd SFDAdenylylsulfate reductase, subunit A (AprA) / 0.708
4nev FADTrypanothione reductase / 0.708
4opd FDAConserved Archaeal protein / 0.708
1knr FADL-aspartate oxidase 1.4.3.16 0.707
4fwf FADLysine-specific histone demethylase 1B 1 0.707
2gqw FADFerredoxin reductase / 0.706
4bur FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.704
3f8d FADNADH oxidase/thioredoxin reductase / 0.703
2wes FADTryptophan 5-halogenase / 0.702
2yg7 FADPutrescine oxidase / 0.702
3oc4 FADOxidoreductase, pyridine nucleotide-disulfide family / 0.702
2fjb SFDAdenylylsulfate reductase, subunit A (AprA) / 0.700
2ar8 FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.699
2ard FDAFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.699
2gr0 FADFerredoxin reductase / 0.699
3cox FADCholesterol oxidase 1.1.3.6 0.699
3ic9 FADPutative dihydrolipoamide dehydrogenase / 0.699
4h4p FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.698
4h4v FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.698
3awi FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC 1.5 0.697
4h4t FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.697
5j60 FADThioredoxin reductase / 0.697
4h4r FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.696
4u2l SFDCholesterol oxidase 1.1.3.6 0.696
3cnd FADPolyamine oxidase FMS1 / 0.695
3cnt FADPolyamine oxidase FMS1 / 0.695
4gus FADLysine-specific histone demethylase 1B 1 0.695
2x8h FADThioredoxin glutathione reductase / 0.694
3rha FDAPutrescine oxidase / 0.694
4opu FDAConserved Archaeal protein / 0.694
4u8k FDAUDP-galactopyranose mutase / 0.694
1cbo FADCholesterol oxidase 1.1.3.6 0.693
3djg FADGlutathione reductase, mitochondrial 1.8.1.7 0.693
1d4d FADFumarate reductase flavoprotein subunit 1.3.5.4 0.692
1h7w FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.691
1h83 FADPolyamine oxidase 1.5.3.14 0.691
2hqm FADGlutathione reductase 1.8.1.7 0.691
1rsg FADPolyamine oxidase FMS1 / 0.690
2yg3 FADPutrescine oxidase / 0.689
3ef6 FADToluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component 1.18.1.3 0.689
3bi2 FADPolyamine oxidase FMS1 / 0.688
1k4q FADGlutathione reductase, mitochondrial 1.8.1.7 0.686
1zx9 FADMercuric reductase 1.16.1.1 0.686
2iw5 FADLysine-specific histone demethylase 1A 1 0.685
4gap FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial 1.6.5.9 0.685
4gcm FADThioredoxin reductase 1.8.1.9 0.685
1jnr FADAdenylylsulfate reductase, subunit A (AprA) / 0.684
4b1b FADThioredoxin reductase 1.8.1.9 0.684
3uoy FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase 1.14.13.160 0.683
4bv6 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.683
4u8i FDAUDP-galactopyranose mutase / 0.683
4u8o FDAUDP-galactopyranose mutase / 0.683
3kkj FADRenalase / 0.682
4h4x FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.682
1z6l FADPolyamine oxidase FMS1 / 0.681
2igo FADPyranose 2-oxidase / 0.681
1tdf FADThioredoxin reductase 1.8.1.9 0.679
4jdr FADDihydrolipoyl dehydrogenase 1.8.1.4 0.679
1e1l FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.678
4bjz FADProbable salicylate monooxygenase / 0.678
5buk FADFADH2-dependent halogenase / 0.678
2iid FADL-amino-acid oxidase 1.4.3.2 0.677
2ywl FADThioredoxin reductase related protein / 0.677
3pft FMNFlavin reductase / 0.677
4o5u FADAlkyl hydroperoxide reductase subunit F 1.8.1 0.677
4usr FADMonooxygenase / 0.677
5g3t FDAFlavin-dependent L-tryptophan oxidase VioA / 0.677
2hko FADLysine-specific histone demethylase 1A 1 0.676
2v3a FADRubredoxin-NAD(+) reductase 1.18.1.1 0.676
3lzw FADFerredoxin--NADP reductase 2 1.18.1.2 0.676
3ntd FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.676
2a87 FADThioredoxin reductase 1.8.1.9 0.675
4gur FADLysine-specific histone demethylase 1B 1 0.675
1fnc FDAFerredoxin--NADP reductase, chloroplastic 1.18.1.2 0.674
2apg FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.674
3ad9 FADSubunit beta of sarcosine oxidase / 0.674
4opl FDAConserved Archaeal protein / 0.674
5eb5 FAD(R)-mandelonitrile lyase 1 4.1.2.10 0.674
3gwf NAPCyclohexanone monooxygenase / 0.673
1lqu FADNADPH-ferredoxin reductase FprA 1.18.1.2 0.672
2c3c FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.672
4fx9 FADCoenzyme A disulfide reductase 1.8.1.14 0.672
1h81 FADPolyamine oxidase 1.5.3.14 0.671
1phh FADp-hydroxybenzoate hydroxylase / 0.671
2cfy FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.671
3zdn FADMonoamine oxidase N 1.4.3.4 0.671
1trb FADThioredoxin reductase 1.8.1.9 0.670
4gdp FADPolyamine oxidase FMS1 / 0.670
4j2w FADKynurenine 3-monooxygenase / 0.670
4u8m FDAUDP-galactopyranose mutase / 0.670
1dnc FADGlutathione reductase, mitochondrial 1.8.1.7 0.669
3cgc FADCoenzyme A disulfide reductase / 0.669
3utf FDAUDP-galactopyranose mutase / 0.669
4dsg FADUncharacterized protein / 0.669
4fwj FADLysine-specific histone demethylase 1B 1 0.669
4g73 FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial 1.6.5.9 0.669
4j57 FADThioredoxin reductase 2 1.8.1.9 0.669
1e63 FADFerredoxin--NADP reductase 1.18.1.2 0.668
2fja FADAdenylylsulfate reductase, subunit A (AprA) / 0.668
3lad FADDihydrolipoyl dehydrogenase / 0.668
3ukk FDAUDP-galactopyranose mutase / 0.668
3uth FDAUDP-galactopyranose mutase / 0.668
4qi5 FADCellobiose dehydrogenase / 0.668
5g3s FDAFlavin-dependent L-tryptophan oxidase VioA / 0.668
1i8t FADUDP-galactopyranose mutase 5.4.99.9 0.667
2e1m FADL-glutamate oxidase / 0.667
2whd FADThioredoxin reductase / 0.667
3nt6 FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.667
4u8l FDAUDP-galactopyranose mutase / 0.667
4wx1 FDAUDP-galactopyranose mutase / 0.667
2b9w FADPutative aminooxidase / 0.666
4a5l FADThioredoxin reductase / 0.666
4u8n FDAUDP-galactopyranose mutase / 0.666
4u8p FDAUDP-galactopyranose mutase / 0.666
1e62 FADFerredoxin--NADP reductase 1.18.1.2 0.665
2yg5 FADPutrescine oxidase / 0.665
3lzx FADFerredoxin--NADP reductase 2 1.18.1.2 0.665
4h4z FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.665
4u8j FDAUDP-galactopyranose mutase / 0.665
1gte FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.664
2c4c FAD[F-actin]-methionine sulfoxide oxidase MICAL1 1.14.13 0.664
2j3n FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.664
2ok8 FADFerredoxin--NADP reductase, apicoplast / 0.664
3grs FADGlutathione reductase, mitochondrial 1.8.1.7 0.664
3kpf FADPolyamine oxidase 1.5.3.14 0.664
4b64 NAPL-ornithine N(5)-monooxygenase / 0.664
4guu FA9Lysine-specific histone demethylase 1B 1 0.664
4i58 FADCyclohexylamine Oxidase / 0.664
1fec FADTrypanothione reductase 1.8.1.12 0.663
2jb1 FADL-amino acid oxidase / 0.663
2uxx FAJLysine-specific histone demethylase 1A 1 0.663
2xvf FADPutative flavin-containing monooxygenase / 0.663
4af6 FADFerredoxin--NADP reductase, leaf isozyme, chloroplastic 1.18.1.2 0.663
4ech FADPolyamine oxidase FMS1 / 0.663
4ynt FDAGlucose oxidase, putative / 0.663
2jae FADL-amino acid oxidase / 0.662
2jkc FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.662
2ym1 FADPhenylacetone monooxygenase 1.14.13.92 0.662
4a1o AMZBifunctional purine biosynthesis protein PurH 2.1.2.3 0.662
1h6v FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.661
1tde FADThioredoxin reductase 1.8.1.9 0.661
2reh FADNitroalkane oxidase 1.7.3.1 0.660
3ukf FDAUDP-galactopyranose mutase / 0.660
4lii FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.660
1gsn FADGlutathione reductase, mitochondrial 1.8.1.7 0.659
1kph SAHCyclopropane mycolic acid synthase 1 2.1.1.79 0.659
2bn4 FADNADPH--cytochrome P450 reductase / 0.659
2ylz FADPhenylacetone monooxygenase 1.14.13.92 0.659
3v76 FDAUncharacterized protein / 0.659
3vo2 FADFerredoxin--NADP reductase / 0.659
4cnj FADL-amino acid oxidase / 0.659
2q0l NAPThioredoxin reductase 1.8.1.9 0.658
3lov FADProtoporphyrinogen oxidase / 0.658
4opi FDAConserved Archaeal protein / 0.658
2i0z FADNAD(FAD)-utilizing dehydrogenases / 0.657
2qa1 FADPgaE / 0.657
2vqb FADPutative flavin-containing monooxygenase / 0.657
2wow FADTrypanothione reductase / 0.657
3qj4 FADRenalase / 0.657
4bk2 FADProbable salicylate monooxygenase / 0.657
4jnq FDAThioredoxin reductase / 0.657
4nte FADDepH / 0.657
1kyv RBF6,7-dimethyl-8-ribityllumazine synthase 2.5.1.78 0.656
1xdi FADNAD(P)H dehydrogenase (quinone) / 0.656
3bi5 FADPolyamine oxidase FMS1 / 0.656
1gre FADGlutathione reductase, mitochondrial 1.8.1.7 0.655
1nhs FADNADH peroxidase 1.11.1.1 0.655
4eqs FADCoenzyme A disulfide reductase / 0.655
5l3d FADLysine-specific histone demethylase 1A 1 0.655
1bx1 FADFerredoxin--NADP reductase, chloroplastic 1.18.1.2 0.654
2c3d FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.654
2tmd ADPTrimethylamine dehydrogenase 1.5.8.2 0.654
3dgh FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.654
3qvr FADGlucose oxidase 1.1.3.4 0.654
4y9d NAIC alpha-dehydrogenase / 0.654
3ae4 FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.653
4ccq FADThioredoxin reductase / 0.653
1w4x FADPhenylacetone monooxygenase 1.14.13.92 0.652
3da1 FADGlycerol-3-phosphate dehydrogenase / 0.652
4gde FDAUDP-galactopyranose mutase / 0.652
2xlt NA0Putative flavin-containing monooxygenase / 0.651
4ocg FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.651
1k0l FADp-hydroxybenzoate hydroxylase / 0.650
3kyb FADUDP-galactopyranose mutase 5.4.99.9 0.650
3nta FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.650
3sqp FADGlutathione reductase, mitochondrial 1.8.1.7 0.650