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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
4bmo FMN Protein NrdI

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4bmo FMNProtein NrdI / 1.294
4bmp FMNProtein NrdI / 1.206
4n82 FMNRibonucleotide reductase (NrdI family protein), putative / 0.956
2fcr FMNFlavodoxin / 0.898
3n3a FMNProtein NrdI / 0.897
3n3b FMNProtein NrdI / 0.897
3n39 FMNProtein NrdI / 0.802
1yob FMNFlavodoxin 2 / 0.797
4oxx FMNCindoxin / 0.795
1tll FMNNitric oxide synthase, brain 1.14.13.39 0.784
3f6s FMNFlavodoxin / 0.778
2ohh FMNType A flavoprotein FprA 1 0.777
2w5u FMNFlavodoxin / 0.777
1c7f FMNFlavodoxin / 0.776
3ojw FMNNADPH--cytochrome P450 reductase / 0.772
1fue FMNFlavodoxin / 0.769
3qe2 FMNNADPH--cytochrome P450 reductase / 0.769
5tgz FMNCannabinoid receptor 1 / 0.768
3ojx FMNNADPH--cytochrome P450 reductase / 0.767
2fx2 FMNFlavodoxin / 0.762
2ohj FMNType A flavoprotein FprA 1 0.756
4y7c FMNNADPH--cytochrome P450 reductase / 0.755
1aku FMNFlavodoxin / 0.754
2bf4 FMNNADPH--cytochrome P450 reductase / 0.753
1ycf FMNNitric oxide reductase 1 0.748
1azl FMNFlavodoxin / 0.743
1czn FMNFlavodoxin / 0.741
2hpv FMNFMN-dependent NADH-azoreductase 1.7 0.736
1amo FMNNADPH--cytochrome P450 reductase / 0.733
1wsb FMNFlavodoxin / 0.730
1xyv FMNFlavodoxin / 0.727
1ycg FMNNitric oxide reductase 1 0.727
1ych FMNNitric oxide reductase 1 0.726
2q9u FMNA-type flavoprotein / 0.724
1akr FMNFlavodoxin / 0.722
1j9g FMNFlavodoxin / 0.721
2bn4 FMNNADPH--cytochrome P450 reductase / 0.721
3b04 OOPIsopentenyl-diphosphate delta-isomerase / 0.719
3esz FMNFlavodoxin / 0.719
4m0c FMNFMN-dependent NADH-azoreductase 1 / 0.719
2ohi FMNType A flavoprotein FprA 1 0.718
2v5u FMNFlavodoxin / 0.716
1ofv FMNFlavodoxin / 0.712
1j8q FMNFlavodoxin / 0.710
3klb FMNUncharacterized protein / 0.709
3qfr FMNNADPH--cytochrome P450 reductase / 0.707
3esy FMNFlavodoxin / 0.706
3f6r FMNFlavodoxin / 0.705
1ahn FMNFlavodoxin 1 / 0.704
2zry FNRIsopentenyl-diphosphate delta-isomerase / 0.704
2r97 FMNNAD(P)H dehydrogenase (quinone) / 0.702
3b05 FNRIsopentenyl-diphosphate delta-isomerase / 0.699
1ja0 FMNNADPH--cytochrome P450 reductase / 0.698
3zho FMNNAD(P)H dehydrogenase (quinone) / 0.697
2zrv FNRIsopentenyl-diphosphate delta-isomerase / 0.694
1akw FMNFlavodoxin / 0.692
1djq FMNTrimethylamine dehydrogenase 1.5.8.2 0.692
2v5v FMNFlavodoxin / 0.692
4h2d FMNNADPH-dependent diflavin oxidoreductase 1 / 0.691
3haz FADBifunctional protein PutA / 0.690
5f12 FMNNAD(P)H dehydrogenase (quinone) / 0.689
1t5b FMNFMN-dependent NADH-azoreductase / 0.687
4f4q FADDecaprenylphosphoryl-beta-D-ribose oxidase / 0.687
4j8p FMNFlavodoxin / 0.686
4yao FMNNADPH--cytochrome P450 reductase / 0.686
1vcf FMNIsopentenyl-diphosphate delta-isomerase / 0.683
1zwl FMNNAD(P)H dehydrogenase (quinone) 1.6.5.2 0.683
2b3d FADModulator of drug activity B / 0.683
4qai FMNNADPH dehydrogenase / 0.683
4n9q FMNFMN-dependent NADH-azoreductase 1 / 0.682
4xq6 FMNDihydroorotate dehydrogenase (quinone) / 0.681
1xyy FMNFlavodoxin / 0.680
4hs4 FMNChromate reductase / 0.680
5ahs FADAcyl-CoA dehydrogenase / 0.680
5xra FMNCannabinoid receptor 1 / 0.679
2ix5 FADAcyl-coenzyme A oxidase 4, peroxisomal 1.3.3.6 0.678
1bu5 RBFFlavodoxin / 0.677
4n65 FMNFMN-dependent NADH-azoreductase 1 / 0.674
4q73 FADBifunctional protein PutA / 0.674
4rnx FMNNADPH dehydrogenase 1 1.6.99.1 0.674
5a4k FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.674
4hnb FMNLOV protein / 0.672
3kap FMNFlavodoxin / 0.671
4fx2 FMNFlavodoxin / 0.669
5eai FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.669
3vkj FNRIsopentenyl-diphosphate delta-isomerase / 0.668
5xr8 FMNCannabinoid receptor 1 / 0.668
4tmb FMNOld yellow enzyme / 0.666
3rpe FADPutative modulator of drug activity / 0.665
4ef8 FMNDihydroorotate dehydrogenase (fumarate) / 0.664
2isj FMN5,6-dimethylbenzimidazole synthase 1.13.11.79 0.663
2isl FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.663
1udy FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.662
2zrx FMNIsopentenyl-diphosphate delta-isomerase / 0.662
3tjl FMNNADPH dehydrogenase / 0.662
4aws FMNNADH:flavin oxidoreductase Sye1 / 0.662
4m5p FMNNADPH dehydrogenase / 0.662
4qof FMNRibosyldihydronicotinamide dehydrogenase [quinone] / 0.662
2d29 FADAcyl-CoA dehydrogenase / 0.661
2wzv FMNNitroreductase NfnB / 0.661
2wzw FMNNitroreductase NfnB / 0.661
4df2 FMNNADPH dehydrogenase / 0.661
1vji FMN12-oxophytodienoate reductase 1 1.3.1.42 0.660
4dy4 FMNNAD(P)H dehydrogenase (quinone) / 0.660
1oyc FMNNADPH dehydrogenase 1 1.6.99.1 0.659
2mt9 FMNFlavodoxin 2 / 0.659
3g5m FADRibosyldihydronicotinamide dehydrogenase [quinone] / 0.659
4ttc FMNIodotyrosine deiodinase 1 / 0.659
4zvn FADRibosyldihydronicotinamide dehydrogenase [quinone] / 0.659
1j9z FMNNADPH--cytochrome P450 reductase / 0.658
1kbq FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.658
3oib FDAPutative acyl-CoA dehydrogenase / 0.658
4iv6 FDAIsovaleryl-CoA dehydrogenase / 0.658
4qoe FADRibosyldihydronicotinamide dehydrogenase [quinone] / 0.658
1oya FMNNADPH dehydrogenase 1 1.6.99.1 0.657
3aty FMNProstaglandin F2a synthase / 0.657
4k7y FMNNADPH dehydrogenase 1 1.6.99.1 0.657
4gde FDAUDP-galactopyranose mutase / 0.656
1bwk FMNNADPH dehydrogenase 1 1.6.99.1 0.655
1ja1 FMNNADPH--cytochrome P450 reductase / 0.655
3hr4 FMNNitric oxide synthase, inducible 1.14.13.39 0.655
5fx2 FMNFlavodoxin / 0.655
1i0s FMNFerric-chelate reductase (NAD(P)H) / 0.654
3q9t FAYUncharacterized protein / 0.654
1ykg FMNSulfite reductase [NADPH] flavoprotein alpha-component / 0.653
2zrz FNRIsopentenyl-diphosphate delta-isomerase / 0.653
3hjk FADVivid PAS protein VVD / 0.653
3n19 FNRXenobiotic reductase / 0.653
4jic FMNGTN Reductase / 0.653
4rnw FMNNADPH dehydrogenase 1 1.6.99.1 0.653
1fx1 FMNFlavodoxin / 0.652
4wzh FMNDihydroorotate dehydrogenase (fumarate) / 0.652
2pd7 FADVivid PAS protein VVD / 0.651
2pd8 FADVivid PAS protein VVD / 0.651
3ge6 FMNNitroreductase / 0.651
4u8m FDAUDP-galactopyranose mutase / 0.651
1ju2 FAD(R)-mandelonitrile lyase 2 4.1.2.10 0.650
2isk FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.650
4h6k FMNNADPH dehydrogenase 1 1.6.99.1 0.650