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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
2h94 FAD Lysine-specific histone demethylase 1A 1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2h94 FADLysine-specific histone demethylase 1A 1 1.527
2hko FADLysine-specific histone demethylase 1A 1 1.120
2dw4 FADLysine-specific histone demethylase 1A 1 1.067
4xbf FADLysine-specific histone demethylase 1A 1 1.027
4gut FADLysine-specific histone demethylase 1B 1 0.994
2uxx FAJLysine-specific histone demethylase 1A 1 0.964
4fwj FADLysine-specific histone demethylase 1B 1 0.961
1yy5 FADPolyamine oxidase FMS1 / 0.960
2iw5 FADLysine-specific histone demethylase 1A 1 0.959
4fwe FADLysine-specific histone demethylase 1B 1 0.951
5l3d FADLysine-specific histone demethylase 1A 1 0.951
4gus FADLysine-specific histone demethylase 1B 1 0.948
2y48 FADLysine-specific histone demethylase 1A 1 0.939
4gur FADLysine-specific histone demethylase 1B 1 0.933
4hsu FADLysine-specific histone demethylase 1B 1 0.931
1rsg FADPolyamine oxidase FMS1 / 0.928
4fwf FADLysine-specific histone demethylase 1B 1 0.913
3bi5 FADPolyamine oxidase FMS1 / 0.912
1xpq FADPolyamine oxidase FMS1 / 0.907
2yg4 FADPutrescine oxidase / 0.902
3bi2 FADPolyamine oxidase FMS1 / 0.902
3zdn FADMonoamine oxidase N 1.4.3.4 0.899
2e1m FADL-glutamate oxidase / 0.896
1h83 FADPolyamine oxidase 1.5.3.14 0.895
3cn8 FADPolyamine oxidase FMS1 / 0.895
1z6l FADPolyamine oxidase FMS1 / 0.890
4gdp FADPolyamine oxidase FMS1 / 0.889
3cnd FADPolyamine oxidase FMS1 / 0.883
5g3s FDAFlavin-dependent L-tryptophan oxidase VioA / 0.880
3kpf FADPolyamine oxidase 1.5.3.14 0.871
2jb2 FADL-amino acid oxidase / 0.859
5g3t FDAFlavin-dependent L-tryptophan oxidase VioA / 0.856
4ech FADPolyamine oxidase FMS1 / 0.849
1h81 FADPolyamine oxidase 1.5.3.14 0.848
3qj4 FADRenalase / 0.838
3kkj FADRenalase / 0.836
2bab FADPutative aminooxidase / 0.833
3k7m FAD6-hydroxy-L-nicotine oxidase / 0.829
2jae FADL-amino acid oxidase / 0.827
2yg7 FADPutrescine oxidase / 0.827
2yg5 FADPutrescine oxidase / 0.824
3cnt FADPolyamine oxidase FMS1 / 0.824
2bac FADPutative aminooxidase / 0.823
2yg6 FADPutrescine oxidase / 0.823
2vvl FADMonoamine oxidase N 1.4.3.4 0.821
2yg3 FADPutrescine oxidase / 0.816
2yr5 FADPhenylalanine 2-monooxygenase precursor 1.13.12.9 0.812
2jb1 FADL-amino acid oxidase / 0.811
2b9y FADPutative aminooxidase / 0.807
4gcm FADThioredoxin reductase 1.8.1.9 0.806
3nn6 FB06-hydroxy-L-nicotine oxidase / 0.801
3qvr FADGlucose oxidase 1.1.3.4 0.800
4guu FA9Lysine-specific histone demethylase 1B 1 0.795
2b9x FADPutative aminooxidase / 0.793
4ynt FDAGlucose oxidase, putative / 0.792
4dsh FDAUncharacterized protein / 0.789
2b9w FADPutative aminooxidase / 0.788
3k4c FADPyranose 2-oxidase / 0.786
4z24 FADPutative GMC-type oxidoreductase R135 1 0.785
4i58 FADCyclohexylamine Oxidase / 0.781
1cf3 FADGlucose oxidase 1.1.3.4 0.774
3t37 FADPyridoxine 4-oxidase / 0.773
3gdp FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.772
4cnk FADL-amino acid oxidase / 0.771
3r9u FADThioredoxin reductase / 0.769
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.768
3oc4 FADOxidoreductase, pyridine nucleotide-disulfide family / 0.768
4cnj FADL-amino acid oxidase / 0.768
4u8o FDAUDP-galactopyranose mutase / 0.767
3dgh FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.766
3qvp FADGlucose oxidase 1.1.3.4 0.766
1cc2 FADCholesterol oxidase 1.1.3.6 0.765
4z26 FADPutative GMC-type oxidoreductase R135 1 0.765
3rha FDAPutrescine oxidase / 0.764
1ebd FADDihydrolipoyl dehydrogenase 1.8.1.4 0.762
4a65 FADThioredoxin reductase / 0.762
4cy8 FDA2-hydroxybiphenyl-3-monooxygenase / 0.762
3gyj FADCholesterol oxidase 1.1.3.6 0.759
3k7t FAD6-hydroxy-L-nicotine oxidase / 0.759
3cge FADCoenzyme A disulfide reductase / 0.757
2ywl FADThioredoxin reductase related protein / 0.756
1tde FADThioredoxin reductase 1.8.1.9 0.755
3cty FADProbable thioredoxin reductase / 0.754
2igo FADPyranose 2-oxidase / 0.753
4wct FADFructosyl amine:oxygen oxidoreductase / 0.752
1gal FADGlucose oxidase 1.1.3.4 0.751
4a5l FADThioredoxin reductase / 0.751
3lsh FADPyranose 2-oxidase / 0.750
2q0k FADThioredoxin reductase 1.8.1.9 0.749
1n4u FAECholesterol oxidase 1.1.3.6 0.747
3cnj FADCholesterol oxidase 1.1.3.6 0.747
3nlc FADUncharacterized protein / 0.747
4mih FADPyranose 2-oxidase 1.1.3.10 0.746
2rab FADGlutathione amide reductase / 0.745
3cgc FADCoenzyme A disulfide reductase / 0.745
3we0 FADLysine 2-monooxygenase / 0.745
1gte FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.744
1h7w FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.744
2du8 FADD-amino-acid oxidase 1.4.3.3 0.744
2ign FADPyranose 2-oxidase / 0.744
3lsi FADPyranose 2-oxidase / 0.744
2q7v FADThioredoxin reductase / 0.743
2ba9 FADPutative aminooxidase / 0.742
2gew FADCholesterol oxidase 1.1.3.6 0.741
4o5q FADAlkyl hydroperoxide reductase subunit F 1.8.1 0.741
1gth FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.739
1ve9 FADD-amino-acid oxidase 1.4.3.3 0.739
2r9z FADGlutathione amide reductase / 0.739
3vqr FADPutative oxidoreductase / 0.739
1cbo FADCholesterol oxidase 1.1.3.6 0.738
3nyc FADFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.738
3oz2 FADDigeranylgeranylglycerophospholipid reductase / 0.738
1tdf FADThioredoxin reductase 1.8.1.9 0.737
1zmc FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.737
1mok FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.736
3sm8 FNKFAD-dependent catabolic D-arginine dehydrogenase DauA / 0.736
3lsm SFDPyranose 2-oxidase / 0.735
1ryi FADGlycine oxidase 1.4.3.19 0.734
4la1 FADThioredoxin glutathione reductase / 0.734
4gdc FADUDP-galactopyranose mutase / 0.733
4dsg FADUncharacterized protein / 0.732
1b8s FADCholesterol oxidase 1.1.3.6 0.731
3b6d FAECholesterol oxidase 1.1.3.6 0.730
3ean FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.730
4u2l SFDCholesterol oxidase 1.1.3.6 0.730
1ng3 FADGlycine oxidase 1.4.3.19 0.729
3cgd FADCoenzyme A disulfide reductase / 0.727
5j60 FADThioredoxin reductase / 0.727
4u2t FADCholesterol oxidase 1.1.3.6 0.726
4u8j FDAUDP-galactopyranose mutase / 0.726
1c0k FADD-amino-acid oxidase 1.4.3.3 0.725
3qfa FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.725
1f8s FADL-amino-acid oxidase 1.4.3.2 0.724
3ka7 FADPutative oxidoreductase / 0.724
1f8r FADL-amino-acid oxidase 1.4.3.2 0.722
2gmh FADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial 1.5.5.1 0.721
3ic9 FADPutative dihydrolipoamide dehydrogenase / 0.720
3uth FDAUDP-galactopyranose mutase / 0.719
3gyi FADCholesterol oxidase 1.1.3.6 0.718
4u8m FDAUDP-galactopyranose mutase / 0.718
2j3n FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.717
4rek FADCholesterol oxidase 1.1.3.6 0.717
4nev FADTrypanothione reductase / 0.716
1ps9 FAD2,4-dienoyl-CoA reductase 1.3.1.34 0.715
1sez FADProtoporphyrinogen oxidase, mitochondrial 1.3.3.4 0.715
3da1 FADGlycerol-3-phosphate dehydrogenase / 0.715
4h4t FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.715
4h4v FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.715
1tdn FADL-amino-acid oxidase 1.4.3.2 0.713
4u2s FDACholesterol oxidase 1.1.3.6 0.712
3icr FADCoenzyme A disulfide reductase / 0.710
4up3 FADThioredoxin reductase / 0.709
1ng4 FADGlycine oxidase 1.4.3.19 0.708
3klj FADNADH-rubredoxin oxidoreductase 1.18.1.1 0.708
4em4 FADCoenzyme A disulfide reductase / 0.708
2cfy FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.707
3ict FADCoenzyme A disulfide reductase / 0.707
4ccr FADThioredoxin reductase / 0.706
1b4v FADCholesterol oxidase 1.1.3.6 0.705
1gre FADGlutathione reductase, mitochondrial 1.8.1.7 0.705
1qo8 FADFumarate reductase flavoprotein subunit / 0.705
3kve FADL-amino-acid oxidase / 0.705
4u8n FDAUDP-galactopyranose mutase / 0.705
4xwr FADCholesterol oxidase 1.1.3.6 0.705
4ykg FADAlkyl hydroperoxide reductase subunit F 1.8.1 0.705
1geu FADGlutathione reductase 1.8.1.7 0.704
1n1p FADCholesterol oxidase 1.1.3.6 0.704
3ab1 FADFerredoxin--NADP reductase 1.18.1.2 0.704
3k4n FADPyranose 2-oxidase / 0.704
3utf FDAUDP-galactopyranose mutase / 0.704
4u8k FDAUDP-galactopyranose mutase / 0.704
1e6e FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.702
1get FADGlutathione reductase 1.8.1.7 0.702
1tdo FADL-amino-acid oxidase 1.4.3.2 0.702
4c3x FAD3-ketosteroid dehydrogenase / 0.701
3uka FADUDP-galactopyranose mutase / 0.700
4c3y FAD3-ketosteroid dehydrogenase / 0.700
1joa FADNADH peroxidase 1.11.1.1 0.699
2gr3 FADFerredoxin reductase / 0.699
4h4r FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.699
4opt FDAConserved Archaeal protein / 0.697
1gpe FADGlucose oxidase 1.1.3.4 0.696
1grh FADGlutathione reductase, mitochondrial 1.8.1.7 0.696
4bjz FADProbable salicylate monooxygenase / 0.696
1cjc FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.695
2gr0 FADFerredoxin reductase / 0.695
2wow FADTrypanothione reductase / 0.695
1fec FADTrypanothione reductase 1.8.1.12 0.694
4wx1 FDAUDP-galactopyranose mutase / 0.694
4xxg FADCholesterol oxidase 1.1.3.6 0.692
4ykf FADAlkyl hydroperoxide reductase subunit F 1.8.1 0.692
1c0l FADD-amino-acid oxidase 1.4.3.3 0.691
4rsl FADFructosyl peptide oxidase / 0.691
1mxt FAECholesterol oxidase 1.1.3.6 0.690
1n4w FADCholesterol oxidase 1.1.3.6 0.690
2iid FADL-amino-acid oxidase 1.4.3.2 0.690
2yqu FADDihydrolipoyl dehydrogenase / 0.690
4yry FADGlutamate synthase, beta subunit / 0.690
1jeh FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.689
2a8x FADDihydrolipoyl dehydrogenase 1.8.1.4 0.689
2c4c FAD[F-actin]-methionine sulfoxide oxidase MICAL1 1.14.13 0.689
2rgh FADAlpha-Glycerophosphate Oxidase / 0.689
3bg7 FADPyranose 2-oxidase / 0.689
4bk3 FADProbable salicylate monooxygenase / 0.689
4u8p FDAUDP-galactopyranose mutase / 0.689
5buk FADFADH2-dependent halogenase / 0.689
3cox FADCholesterol oxidase 1.1.3.6 0.688
4r38 RBFBlue-light-activated histidine kinase 2 2.7.13.3 0.688
2gqw FADFerredoxin reductase / 0.687
3dme FADPutative conserved exported protein / 0.687
4emj FADToluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component 1.18.1.3 0.687
4qi5 FADCellobiose dehydrogenase / 0.687
1cl0 FADThioredoxin reductase 1.8.1.9 0.686
1tdk FADL-amino-acid oxidase 1.4.3.2 0.686
1zk7 FADMercuric reductase 1.16.1.1 0.686
2v6o FADThioredoxin glutathione reductase / 0.686
3rnm FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.686
4u8i FDAUDP-galactopyranose mutase / 0.686
2a87 FADThioredoxin reductase 1.8.1.9 0.685
2qa1 FADPgaE / 0.685
2yr4 FADPhenylalanine 2-monooxygenase precursor 1.13.12.9 0.685
3fbs FADOxidoreductase / 0.684
4qi4 FADCellobiose dehydrogenase / 0.684
4jq9 FADDihydrolipoyl dehydrogenase / 0.683
5c2t FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.683
1qg0 FADFerredoxin--NADP reductase, leaf isozyme, chloroplastic 1.18.1.2 0.682
4opc FDAConserved Archaeal protein / 0.682
1trb FADThioredoxin reductase 1.8.1.9 0.681
1tyt FADTrypanothione reductase 1.8.1.12 0.681
3ukl FADUDP-galactopyranose mutase / 0.681
4cbq FADThioredoxin reductase / 0.681
1fl2 FADAlkyl hydroperoxide reductase subunit F 1.8.1 0.680
2xve FADPutative flavin-containing monooxygenase / 0.680
2qcu FADAerobic glycerol-3-phosphate dehydrogenase 1.1.5.3 0.679
3f8d FADNADH oxidase/thioredoxin reductase / 0.679
3utg FDAUDP-galactopyranose mutase / 0.679
4nwz FADFAD-dependent pyridine nucleotide-disulfide oxidoreductase / 0.679
2hqm FADGlutathione reductase 1.8.1.7 0.678
3dgz FADThioredoxin reductase 2, mitochondrial 1.8.1.9 0.678
4opl FDAConserved Archaeal protein / 0.678
1e1l FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.677
3mhp FADFerredoxin--NADP reductase, leaf isozyme, chloroplastic 1.18.1.2 0.677
4g6h FADRotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial 1.6.5.9 0.677
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.677
5eb5 FAD(R)-mandelonitrile lyase 1 4.1.2.10 0.677
5hhf FDAUDP-galactopyranose mutase / 0.677
2zbw FADFerredoxin--NADP reductase / 0.676
3ukf FDAUDP-galactopyranose mutase / 0.676
2q0l FADThioredoxin reductase 1.8.1.9 0.675
3dk9 FADGlutathione reductase, mitochondrial 1.8.1.7 0.675
3mj4 FADUDP-galactopyranose mutase / 0.675
3uov FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase 1.14.13.160 0.675
3znp FADD-amino-acid oxidase 1.4.3.3 0.675
4b1b FADThioredoxin reductase 1.8.1.9 0.675
1bzl FADTrypanothione reductase 1.8.1.12 0.674
2eq7 FADDihydrolipoyl dehydrogenase / 0.674
3ept FDAPutative FAD-monooxygenase / 0.674
3itj FADThioredoxin reductase 1 1.8.1.9 0.674
4opu FDAConserved Archaeal protein / 0.674
4u8l FDAUDP-galactopyranose mutase / 0.674
1zmd FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.673
4j33 FADKynurenine 3-monooxygenase / 0.673
5hxw FADL-amino acid deaminase / 0.673
1mo9 FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.672
1zx9 FADMercuric reductase 1.16.1.1 0.672
3urh FADDihydrolipoyl dehydrogenase / 0.672
4x9m FADUncharacterized protein MG039 homolog / 0.672
1vdc FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.671
2c7g FADNADPH-ferredoxin reductase FprA 1.18.1.2 0.671
4yxd FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.671
5fs6 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.671
1reo FADL-amino-acid oxidase 1.4.3.2 0.670
2vou FAD2,6-dihydroxypyridine 3-monooxygenase 1.14.13.10 0.670
4at0 FADPossible succinate dehydrogenase / 0.670
1h6v FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.669
3atq FDAConserved Archaeal protein / 0.669
5hsa FASAlcohol oxidase 1 1.1.3.13 0.669
1v59 FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.667
2bi8 FADUDP-galactopyranose mutase 5.4.99.9 0.666
2whd FADThioredoxin reductase / 0.666
3v76 FDAUncharacterized protein / 0.666
4opg FDAConserved Archaeal protein / 0.666
1nhq FADNADH peroxidase 1.11.1.1 0.665
2i0z FADNAD(FAD)-utilizing dehydrogenases / 0.665
2qae FADDihydrolipoyl dehydrogenase 1.8.1.4 0.665
2wba FADTrypanothione reductase 1.8.1.12 0.665
3cgb FADCoenzyme A disulfide reductase / 0.665
2wp5 FADTrypanothione reductase / 0.664
3m0o FADMonomeric sarcosine oxidase 1.5.3.1 0.664
3m12 FADMonomeric sarcosine oxidase 1.5.3.1 0.664
3ust FADAcMNPV orf92 / 0.664
4j34 FADKynurenine 3-monooxygenase / 0.664
2xdo FADTetX family tetracycline inactivation enzyme / 0.663
3he3 FADUDP-galactopyranose mutase / 0.663
4jnq FDAThioredoxin reductase / 0.663
4ntd FADThioredoxin reductase / 0.663
4o5u FADAlkyl hydroperoxide reductase subunit F 1.8.1 0.662
4x9n FADUncharacterized protein MG039 homolog / 0.662
2x8h FADThioredoxin glutathione reductase / 0.660
3sfe FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.660
4j57 FADThioredoxin reductase 2 1.8.1.9 0.660
1grb FADGlutathione reductase, mitochondrial 1.8.1.7 0.659
2pia FMNPhthalate dioxygenase reductase / 0.659
3djj FADGlutathione reductase, mitochondrial 1.8.1.7 0.659
4gde FDAUDP-galactopyranose mutase / 0.659
4nte FADDepH / 0.659
4zoh FADPutative oxidoreductase FAD-binding subunit / 0.659
1fnb FADFerredoxin--NADP reductase, chloroplastic 1.18.1.2 0.658
5fs7 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.658
5c3j FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.656
1typ FADTrypanothione reductase 1.8.1.12 0.655
2gqf FADUncharacterized protein HI_0933 / 0.655
2pd7 FADVivid PAS protein VVD / 0.655
3if9 FADGlycine oxidase 1.4.3.19 0.655
2zzc FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.654
3hdy FDAUDP-galactopyranose mutase / 0.654
3sfd FADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial / 0.654
1f3p FADFerredoxin reductase / 0.653
1que FADFerredoxin--NADP reductase 1.18.1.2 0.653
2tpr FADTrypanothione reductase 1.8.1.12 0.653
3rp8 FADFAD-dependent urate hydroxylase / 0.653
4ccq FADThioredoxin reductase / 0.653
4k2x FADPolyketide oxygenase/hydroxylase / 0.653
4kpr FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.653
2nvk FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.652
3jsk AHZThiamine thiazole synthase / 0.652
4opd FDAConserved Archaeal protein / 0.652
2eq8 FADDihydrolipoyl dehydrogenase / 0.651
2gh5 FADGlutathione reductase, mitochondrial 1.8.1.7 0.651
2pr5 FMNBlue-light photoreceptor / 0.651
2xvi FADPutative flavin-containing monooxygenase / 0.651
3q9t FAYUncharacterized protein / 0.651
3sgl FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.651
3sqp FADGlutathione reductase, mitochondrial 1.8.1.7 0.651
2zz0 FADThioredoxin reductase 1, cytoplasmic 1.8.1.9 0.650
3pvc FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.650
5eow FAD6-hydroxynicotinate 3-monooxygenase 1.14.13.114 0.650