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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
4bmp FMN Protein NrdI

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4bmp FMNProtein NrdI / 1.261
4bmo FMNProtein NrdI / 1.206
4n82 FMNRibonucleotide reductase (NrdI family protein), putative / 0.946
3n39 FMNProtein NrdI / 0.862
3n3b FMNProtein NrdI / 0.858
3n3a FMNProtein NrdI / 0.847
2fcr FMNFlavodoxin / 0.838
4oxx FMNCindoxin / 0.820
1tll FMNNitric oxide synthase, brain 1.14.13.39 0.815
1yob FMNFlavodoxin 2 / 0.798
2w5u FMNFlavodoxin / 0.791
3ojx FMNNADPH--cytochrome P450 reductase / 0.791
3f6s FMNFlavodoxin / 0.789
2bf4 FMNNADPH--cytochrome P450 reductase / 0.788
2fx2 FMNFlavodoxin / 0.774
1aku FMNFlavodoxin / 0.773
3qe2 FMNNADPH--cytochrome P450 reductase / 0.773
4y7c FMNNADPH--cytochrome P450 reductase / 0.772
5tgz FMNCannabinoid receptor 1 / 0.768
1fue FMNFlavodoxin / 0.766
3ojw FMNNADPH--cytochrome P450 reductase / 0.760
1c7f FMNFlavodoxin / 0.756
1azl FMNFlavodoxin / 0.747
3esy FMNFlavodoxin / 0.747
2bn4 FMNNADPH--cytochrome P450 reductase / 0.745
3esz FMNFlavodoxin / 0.745
1ja0 FMNNADPH--cytochrome P450 reductase / 0.743
2ohj FMNType A flavoprotein FprA 1 0.740
1amo FMNNADPH--cytochrome P450 reductase / 0.739
2ohh FMNType A flavoprotein FprA 1 0.732
1ofv FMNFlavodoxin / 0.729
1wsb FMNFlavodoxin / 0.729
1akr FMNFlavodoxin / 0.727
3qfr FMNNADPH--cytochrome P450 reductase / 0.727
2ohi FMNType A flavoprotein FprA 1 0.719
1ycg FMNNitric oxide reductase 1 0.718
1j8q FMNFlavodoxin / 0.714
1j9g FMNFlavodoxin / 0.712
1ych FMNNitric oxide reductase 1 0.711
1xyv FMNFlavodoxin / 0.710
1ycf FMNNitric oxide reductase 1 0.708
1akw FMNFlavodoxin / 0.706
3kap FMNFlavodoxin / 0.705
2v5v FMNFlavodoxin / 0.703
5xra FMNCannabinoid receptor 1 / 0.699
1ahn FMNFlavodoxin 1 / 0.698
4yao FMNNADPH--cytochrome P450 reductase / 0.698
2v5u FMNFlavodoxin / 0.695
5f12 FMNNAD(P)H dehydrogenase (quinone) / 0.695
3hr4 FMNNitric oxide synthase, inducible 1.14.13.39 0.694
3klb FMNUncharacterized protein / 0.693
1czn FMNFlavodoxin / 0.686
4n65 FMNFMN-dependent NADH-azoreductase 1 / 0.685
1xyy FMNFlavodoxin / 0.683
1ja1 FMNNADPH--cytochrome P450 reductase / 0.682
4j8p FMNFlavodoxin / 0.681
5xr8 FMNCannabinoid receptor 1 / 0.681
2hpv FMNFMN-dependent NADH-azoreductase 1.7 0.679
5fx2 FMNFlavodoxin / 0.679
4n9q FMNFMN-dependent NADH-azoreductase 1 / 0.678
1vcf FMNIsopentenyl-diphosphate delta-isomerase / 0.676
1bu5 RBFFlavodoxin / 0.675
4h2d FMNNADPH-dependent diflavin oxidoreductase 1 / 0.673
4fx2 FMNFlavodoxin / 0.672
3b04 OOPIsopentenyl-diphosphate delta-isomerase / 0.669
4dy4 FMNNAD(P)H dehydrogenase (quinone) / 0.667
2mt9 FMNFlavodoxin 2 / 0.666
4fdp FADDecaprenylphosphoryl-beta-D-ribose oxidase / 0.664
2q9u FMNA-type flavoprotein / 0.663
1fx1 FMNFlavodoxin / 0.661
1j9z FMNNADPH--cytochrome P450 reductase / 0.658
4f4q FADDecaprenylphosphoryl-beta-D-ribose oxidase / 0.658
4tmb FMNOld yellow enzyme / 0.656
3f90 FMNFlavodoxin / 0.655
1d4a FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.654
3e4v FMNUncharacterized protein / 0.654
4qai FMNNADPH dehydrogenase / 0.652
5a4k FADNAD(P)H dehydrogenase [quinone] 1 1.6.5.2 0.652
2r97 FMNNAD(P)H dehydrogenase (quinone) / 0.651
4aut FADDecaprenylphosphoryl-beta-D-ribose oxidase / 0.651
3in6 FMNUncharacterized protein / 0.650