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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
3k7t FAD 6-hydroxy-L-nicotine oxidase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3k7t FAD6-hydroxy-L-nicotine oxidase / 1.460
3k7m FAD6-hydroxy-L-nicotine oxidase / 1.076
2y48 FADLysine-specific histone demethylase 1A 1 0.971
4gdp FADPolyamine oxidase FMS1 / 0.967
4xbf FADLysine-specific histone demethylase 1A 1 0.925
5l3d FADLysine-specific histone demethylase 1A 1 0.911
3bi5 FADPolyamine oxidase FMS1 / 0.908
3cnd FADPolyamine oxidase FMS1 / 0.905
3we0 FADLysine 2-monooxygenase / 0.902
2dw4 FADLysine-specific histone demethylase 1A 1 0.899
2e1m FADL-glutamate oxidase / 0.896
2yr5 FADPhenylalanine 2-monooxygenase precursor 1.13.12.9 0.894
2yg7 FADPutrescine oxidase / 0.882
2vvl FADMonoamine oxidase N 1.4.3.4 0.881
1h83 FADPolyamine oxidase 1.5.3.14 0.880
2iw5 FADLysine-specific histone demethylase 1A 1 0.876
4fwe FADLysine-specific histone demethylase 1B 1 0.870
4fwf FADLysine-specific histone demethylase 1B 1 0.866
4ech FADPolyamine oxidase FMS1 / 0.864
2yg5 FADPutrescine oxidase / 0.863
2jae FADL-amino acid oxidase / 0.861
3nn6 FB06-hydroxy-L-nicotine oxidase / 0.861
2yg4 FADPutrescine oxidase / 0.860
2jb1 FADL-amino acid oxidase / 0.856
4gut FADLysine-specific histone demethylase 1B 1 0.854
4gur FADLysine-specific histone demethylase 1B 1 0.850
4gus FADLysine-specific histone demethylase 1B 1 0.846
3cnt FADPolyamine oxidase FMS1 / 0.845
3kpf FADPolyamine oxidase 1.5.3.14 0.843
2yg6 FADPutrescine oxidase / 0.839
1h81 FADPolyamine oxidase 1.5.3.14 0.835
2yg3 FADPutrescine oxidase / 0.832
4hsu FADLysine-specific histone demethylase 1B 1 0.831
1yy5 FADPolyamine oxidase FMS1 / 0.830
1z6l FADPolyamine oxidase FMS1 / 0.830
4guu FA9Lysine-specific histone demethylase 1B 1 0.828
5g3t FDAFlavin-dependent L-tryptophan oxidase VioA / 0.825
3bi2 FADPolyamine oxidase FMS1 / 0.824
2jb2 FADL-amino acid oxidase / 0.822
2yr4 FADPhenylalanine 2-monooxygenase precursor 1.13.12.9 0.816
1e6e FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.808
3qj4 FADRenalase / 0.808
5g3s FDAFlavin-dependent L-tryptophan oxidase VioA / 0.806
3zdn FADMonoamine oxidase N 1.4.3.4 0.804
4fwj FADLysine-specific histone demethylase 1B 1 0.804
3kkj FADRenalase / 0.790
3cn8 FADPolyamine oxidase FMS1 / 0.777
5er0 FADUncharacterized NAD(FAD)-dependent dehydrogenase / 0.777
1f8r FADL-amino-acid oxidase 1.4.3.2 0.776
1rsg FADPolyamine oxidase FMS1 / 0.776
2iid FADL-amino-acid oxidase 1.4.3.2 0.776
3rha FDAPutrescine oxidase / 0.772
3kve FADL-amino-acid oxidase / 0.765
2h94 FADLysine-specific histone demethylase 1A 1 0.759
1lqu FADNADPH-ferredoxin reductase FprA 1.18.1.2 0.758
3nt6 FADFAD-dependent pyridine nucleotide-disulphide oxidoreductase / 0.757
1wam FADUDP-galactopyranose mutase 5.4.99.9 0.756
2uxx FAJLysine-specific histone demethylase 1A 1 0.755
1xpq FADPolyamine oxidase FMS1 / 0.754
4mih FADPyranose 2-oxidase 1.1.3.10 0.753
1sez FADProtoporphyrinogen oxidase, mitochondrial 1.3.3.4 0.751
1e1n FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.750
4mok FADPyranose 2-oxidase / 0.749
3pl8 FADPyranose 2-oxidase / 0.747
3cge FADCoenzyme A disulfide reductase / 0.746
3uth FDAUDP-galactopyranose mutase / 0.746
4u8k FDAUDP-galactopyranose mutase / 0.744
2bab FADPutative aminooxidase / 0.742
2b9y FADPutative aminooxidase / 0.741
4wx1 FDAUDP-galactopyranose mutase / 0.741
1f8s FADL-amino-acid oxidase 1.4.3.2 0.740
2c4c FAD[F-actin]-methionine sulfoxide oxidase MICAL1 1.14.13 0.740
3ad9 FADSubunit beta of sarcosine oxidase / 0.739
3pvc FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.736
4ysh FADGlycine oxidase / 0.736
3ukk FADUDP-galactopyranose mutase / 0.734
3cgc FADCoenzyme A disulfide reductase / 0.732
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.731
2ign FADPyranose 2-oxidase / 0.731
1f3p FADFerredoxin reductase / 0.730
4u8j FDAUDP-galactopyranose mutase / 0.730
2bac FADPutative aminooxidase / 0.729
3utf FDAUDP-galactopyranose mutase / 0.729
4u8l FDAUDP-galactopyranose mutase / 0.729
4ynt FDAGlucose oxidase, putative / 0.729
2c7g FADNADPH-ferredoxin reductase FprA 1.18.1.2 0.728
4gde FDAUDP-galactopyranose mutase / 0.728
5fs9 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.728
4u8n FDAUDP-galactopyranose mutase / 0.727
4u8m FDAUDP-galactopyranose mutase / 0.724
3awi FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC 1.5 0.723
3lsi FADPyranose 2-oxidase / 0.723
3r9u FADThioredoxin reductase / 0.721
4h4p FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.721
3mj4 FADUDP-galactopyranose mutase / 0.720
1tdk FADL-amino-acid oxidase 1.4.3.2 0.719
2b9x FADPutative aminooxidase / 0.719
2hko FADLysine-specific histone demethylase 1A 1 0.717
3bg7 FADPyranose 2-oxidase / 0.717
3cgd FADCoenzyme A disulfide reductase / 0.717
1reo FADL-amino-acid oxidase 1.4.3.2 0.716
4u8i FDAUDP-galactopyranose mutase / 0.716
4u8p FDAUDP-galactopyranose mutase / 0.716
1c0k FADD-amino-acid oxidase 1.4.3.3 0.715
1npx FADNADH peroxidase 1.11.1.1 0.715
2i0z FADNAD(FAD)-utilizing dehydrogenases / 0.714
3utg FDAUDP-galactopyranose mutase / 0.714
4rpg FADUDP-galactopyranose mutase 5.4.99.9 0.713
1b4v FADCholesterol oxidase 1.1.3.6 0.712
1i8t FADUDP-galactopyranose mutase 5.4.99.9 0.712
2yvf FADFerredoxin reductase / 0.712
4lii FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.712
4z26 FADPutative GMC-type oxidoreductase R135 1 0.712
3cgb FADCoenzyme A disulfide reductase / 0.711
4fx9 FADCoenzyme A disulfide reductase 1.8.1.14 0.710
4nev FADTrypanothione reductase / 0.710
3qvr FADGlucose oxidase 1.1.3.4 0.708
4udr FAD5-(hydroxymethyl)furfural oxidase / 0.708
1e1m FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.706
4i58 FADCyclohexylamine Oxidase / 0.706
1d4c FADFumarate reductase flavoprotein subunit 1.3.5.4 0.705
2gr1 FADFerredoxin reductase / 0.704
3t37 FADPyridoxine 4-oxidase / 0.704
1m6i FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.701
3atq FDAConserved Archaeal protein / 0.701
1gpe FADGlucose oxidase 1.1.3.4 0.700
3ef6 FADToluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component 1.18.1.3 0.700
4gdc FADUDP-galactopyranose mutase / 0.700
3gyj FADCholesterol oxidase 1.1.3.6 0.699
5hhf FDAUDP-galactopyranose mutase / 0.699
3ukl FADUDP-galactopyranose mutase / 0.698
2hqm FADGlutathione reductase 1.8.1.7 0.696
3gsi FADDimethylglycine oxidase 1.5.3.10 0.696
3ka7 FADPutative oxidoreductase / 0.694
4rpj FADUDP-galactopyranose mutase 5.4.99.9 0.694
1cjc FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.693
1tdn FADL-amino-acid oxidase 1.4.3.2 0.693
4j36 FADKynurenine 3-monooxygenase / 0.693
2bi7 FADUDP-galactopyranose mutase 5.4.99.9 0.691
4udq FAD5-(hydroxymethyl)furfural oxidase / 0.690
1ek5 NADUDP-glucose 4-epimerase / 0.689
4h4y FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.689
4h50 FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.689
1d4d FADFumarate reductase flavoprotein subunit 1.3.5.4 0.688
2ba9 FADPutative aminooxidase / 0.688
1gal FADGlucose oxidase 1.1.3.4 0.687
1ger FADGlutathione reductase 1.8.1.7 0.687
3gwf FADCyclohexanone monooxygenase / 0.687
3lzx FADFerredoxin--NADP reductase 2 1.18.1.2 0.685
2b9w FADPutative aminooxidase / 0.684
3vqr FADPutative oxidoreductase / 0.684
4dsg FADUncharacterized protein / 0.684
4h4q FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.684
4h4w FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.684
4u2l SFDCholesterol oxidase 1.1.3.6 0.682
1cbo FADCholesterol oxidase 1.1.3.6 0.681
1gra FADGlutathione reductase, mitochondrial 1.8.1.7 0.681
1grb FADGlutathione reductase, mitochondrial 1.8.1.7 0.681
1zmc NADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.681
2q0l FADThioredoxin reductase 1.8.1.9 0.681
3k4c FADPyranose 2-oxidase / 0.681
1ijh FADCholesterol oxidase 1.1.3.6 0.680
1w4x FADPhenylacetone monooxygenase 1.14.13.92 0.680
1e1l FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.679
2xve FADPutative flavin-containing monooxygenase / 0.679
3oz2 FADDigeranylgeranylglycerophospholipid reductase / 0.679
3sgl FADtRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC / 0.679
4xwr FADCholesterol oxidase 1.1.3.6 0.679
3cnj FADCholesterol oxidase 1.1.3.6 0.678
3gyi FADCholesterol oxidase 1.1.3.6 0.678
3uov FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase 1.14.13.160 0.676
3urh FADDihydrolipoyl dehydrogenase / 0.676
3cuk FADD-amino-acid oxidase 1.4.3.3 0.674
1v0j FADUDP-galactopyranose mutase 5.4.99.9 0.673
2apg FADFlavin-dependent tryptophan halogenase PrnA 1.14.19.9 0.671
5i39 FADL-amino acid deaminase / 0.671
1e1k FADNADPH:adrenodoxin oxidoreductase, mitochondrial 1.18.1.6 0.670
1fea FADTrypanothione reductase 1.8.1.12 0.670
1jeh FADDihydrolipoyl dehydrogenase, mitochondrial 1.8.1.4 0.670
1mo9 FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.670
3dme FADPutative conserved exported protein / 0.670
3lsm SFDPyranose 2-oxidase / 0.670
3uox FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase 1.14.13.160 0.669
4h4s FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.669
2whd FADThioredoxin reductase / 0.668
2yvj FADFerredoxin reductase / 0.668
4mo2 FDAUDP-galactopyranose mutase / 0.668
4tm3 FADKtzI / 0.668
1zx9 FADMercuric reductase 1.16.1.1 0.667
4yry FADGlutamate synthase, beta subunit / 0.667
3rp8 FADFAD-dependent urate hydroxylase / 0.665
4b69 FADL-ornithine N(5)-monooxygenase / 0.665
4dsh FDAUncharacterized protein / 0.665
4nzh FADL-ornithine N(5)-monooxygenase / 0.665
4uir FADOleate hydratase 4.2.1.53 0.665
4xxg FADCholesterol oxidase 1.1.3.6 0.665
5ez7 FADProbable FAD-dependent oxidoreductase PA4991 / 0.665
1c0l FADD-amino-acid oxidase 1.4.3.3 0.664
1get FADGlutathione reductase 1.8.1.7 0.664
1qo8 FADFumarate reductase flavoprotein subunit / 0.664
2du8 FADD-amino-acid oxidase 1.4.3.3 0.664
1gte FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.663
1n4u FAECholesterol oxidase 1.1.3.6 0.663
2gew FADCholesterol oxidase 1.1.3.6 0.663
2yqu FADDihydrolipoyl dehydrogenase / 0.663
3qvp FADGlucose oxidase 1.1.3.4 0.663
4nwz FADFAD-dependent pyridine nucleotide-disulfide oxidoreductase / 0.663
2fjb SFDAdenylylsulfate reductase, subunit A (AprA) / 0.662
4b1b FADThioredoxin reductase 1.8.1.9 0.662
4em4 FADCoenzyme A disulfide reductase / 0.662
4opd FDAConserved Archaeal protein / 0.662
1tdo FADL-amino-acid oxidase 1.4.3.2 0.661
3k30 ADPHistamine dehydrogenase / 0.661
3k4n FADPyranose 2-oxidase / 0.661
3tsc NADUncharacterized protein / 0.661
4u2s FDACholesterol oxidase 1.1.3.6 0.661
1gv4 FADApoptosis-inducing factor 1, mitochondrial 1.1.1 0.659
2eq6 FADDihydrolipoyl dehydrogenase / 0.659
1bwc FADGlutathione reductase, mitochondrial 1.8.1.7 0.658
1h7w FADDihydropyrimidine dehydrogenase [NADP(+)] 1.3.1.2 0.658
2isl FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.658
4xwz FADFructosyl amine:oxygen oxidoreductase / 0.658
3lov FADProtoporphyrinogen oxidase / 0.657
4gcm FADThioredoxin reductase 1.8.1.9 0.657
1b8s FADCholesterol oxidase 1.1.3.6 0.655
1n9l FMNPutative blue light receptor / 0.655
3dh9 FADThioredoxin reductase 1, mitochondrial 1.8.1.9 0.655
4em3 FADCoenzyme A disulfide reductase / 0.655
4mo2 FADUDP-galactopyranose mutase / 0.655
1knr FADL-aspartate oxidase 1.4.3.16 0.654
2rab FADGlutathione amide reductase / 0.654
4u2t FADCholesterol oxidase 1.1.3.6 0.654
1jki NAIInositol-3-phosphate synthase 5.5.1.4 0.653
3dk4 FADGlutathione reductase, mitochondrial 1.8.1.7 0.653
3s5w FADL-ornithine N(5)-monooxygenase / 0.653
5eb5 FAD(R)-mandelonitrile lyase 1 4.1.2.10 0.653
1mok FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.652
1tyt FADTrypanothione reductase 1.8.1.12 0.652
2fje FADAdenylylsulfate reductase, subunit A (AprA) / 0.652
3ad9 NADSubunit alpha of sarocosine oxidase / 0.652
3ukf FDAUDP-galactopyranose mutase / 0.652
4d03 FADPhenylacetone monooxygenase 1.14.13.92 0.652
4eqw FADCoenzyme A disulfide reductase / 0.651
4opc FDAConserved Archaeal protein / 0.651
2ylz FADPhenylacetone monooxygenase 1.14.13.92 0.650
4eeu FMNPhototropin-2 2.7.11.1 0.650
4rek FADCholesterol oxidase 1.1.3.6 0.650