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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
2eba FAD Putative glutaryl-CoA dehydrogenase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2eba FADPutative glutaryl-CoA dehydrogenase / 1.482
2ix5 FADAcyl-coenzyme A oxidase 4, peroxisomal 1.3.3.6 0.977
3sf6 FDAGlutaryl-CoA dehydrogenase / 0.968
4p13 FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.942
1jqi FADShort-chain specific acyl-CoA dehydrogenase, mitochondrial / 0.933
2vig FADShort-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.1 0.917
3p4t FAOPutative acyl-CoA dehydrogenase / 0.903
2pg0 FADAcyl-CoA dehydrogenase / 0.901
3pfd FDAAcyl-CoA dehydrogenase FadE25 / 0.901
3oib FDAPutative acyl-CoA dehydrogenase / 0.898
4iv6 FDAIsovaleryl-CoA dehydrogenase / 0.898
1egd FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.889
2a1t FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.873
3mdd FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.872
5jsc FADPutative acyl-CoA dehydrogenase / 0.866
1buc FADAcyl-CoA dehydrogenase, short-chain specific 1.3.8.1 0.850
1t9g FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.850
5af7 FADAcyl-CoA dehydrogenase / 0.836
4m9a FDAAcyl-CoA dehydrogenase / 0.833
5ahs FADAcyl-CoA dehydrogenase / 0.831
3nf4 FADAcyl-CoA dehydrogenase domain-containing protein / 0.827
1siq FADGlutaryl-CoA dehydrogenase, mitochondrial 1.3.8.6 0.826
1rx0 FADIsobutyryl-CoA dehydrogenase, mitochondrial 1.3.99 0.824
1ege FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.804
3mpi FADGlutaryl-CoA dehydrogenase 1.3.99.32 0.803
1u8v FAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase / 0.794
2z1q FADAcyl-CoA dehydrogenase / 0.793
2dvl FADAcyl-CoA dehydrogenase / 0.787
3owa FADAcyl-CoA dehydrogenase / 0.765
3djl FADPutative acyl-CoA dehydrogenase AidB 1.3.99 0.757
1udy FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial 1.3.8.7 0.756
3r7k FDAProbable acyl CoA dehydrogenase / 0.748
4ttc FMNIodotyrosine deiodinase 1 / 0.748
3u33 FADPutative acyl-CoA dehydrogenase AidB 1.3.99 0.741
2reh FADNitroalkane oxidase 1.7.3.1 0.732
3mkh FADNitroalkane oxidase / 0.732
2c12 FADNitroalkane oxidase 1.7.3.1 0.723
3mpj FADGlutaryl-CoA dehydrogenase 1.3.99.32 0.720
3gfd FMNIodotyrosine deiodinase 1 1.21.1.1 0.719
4y9l FADAcyl-CoA dehydrogenase family member 11 / 0.718
1r2j FADFkbI / 0.715
3fcj FADNitroalkane oxidase 1.7.3.1 0.707
2fre FMNNAD(P)H-flavin oxidoreductase / 0.695
4irn FADAnaB / 0.695
2isl FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.687
3w8w FADPutative FAD-dependent oxygenase EncM / 0.684
2h8x FMNXenA / 0.682
2d29 FADAcyl-CoA dehydrogenase / 0.680
2hsa FMN12-oxophytodienoate reductase 3 1.3.1.42 0.680
2isj FMN5,6-dimethylbenzimidazole synthase 1.13.11.79 0.680
3qdl FMNOxygen-insensitive NADPH nitroreductase / 0.680
2gr3 FADFerredoxin reductase / 0.676
4rnx FMNNADPH dehydrogenase 1 1.6.99.1 0.676
2isk FNR5,6-dimethylbenzimidazole synthase 1.13.11.79 0.675
2fon FADAcyl-coenzyme A oxidase / 0.671
3hgo FMN12-oxophytodienoate reductase 3 1.3.1.42 0.671
4tmb FMNOld yellow enzyme / 0.670
1z48 FMNNADPH dehydrogenase / 0.667
3n39 FMNProtein NrdI / 0.667
1azl FMNFlavodoxin / 0.666
4opl FDAConserved Archaeal protein / 0.666
2c3c FAD2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.665
2gqw FADFerredoxin reductase / 0.665
3pxv FMNNitroreductase / 0.665
4h4r FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.665
4h4x FADBiphenyl dioxygenase ferredoxin reductase subunit / 0.665
2wzv FMNNitroreductase NfnB / 0.664
4k7y FMNNADPH dehydrogenase 1 1.6.99.1 0.664
2wzw FMNNitroreductase NfnB / 0.663
3aty FMNProstaglandin F2a synthase / 0.663
3atz FMNProstaglandin F2a synthase / 0.663
3ic9 FADPutative dihydrolipoamide dehydrogenase / 0.663
4iql FMNEnoyl-(Acyl-carrier-protein) reductase II / 0.662
4xq6 FMNDihydroorotate dehydrogenase (quinone) / 0.662
1efv FADElectron transfer flavoprotein subunit alpha, mitochondrial / 0.661
3koq FMNPutative nitroreductase / 0.661
4x28 FDAAcyl-CoA dehydrogenase FadE26 / 0.660
4x28 FDAAcyl-CoA dehydrogenase FadE27 / 0.660
3e39 FMNNitroreductase / 0.659
1oyc FMNNADPH dehydrogenase 1 1.6.99.1 0.658
2q3o FMN12-oxophytodienoate reductase 3 1.3.1.42 0.657
2v18 FMNDodecin / 0.657
3bm1 FMNPutative NAD(P)H nitroreductase YdjA / 0.657
1j8q FMNFlavodoxin / 0.654
1uum FMNDihydroorotate dehydrogenase (quinone), mitochondrial 1.3.5.2 0.653
4cw5 FMNDfnA / 0.653
1gwj FMNMorphinone reductase / 0.652
2hfn FMNActivator of photopigment and puc expression / 0.652
1vhn FMNtRNA-dihydrouridine synthase / 0.651
1z41 FMNNADPH dehydrogenase / 0.651
1z44 FMNNADPH dehydrogenase / 0.651
2ifa FMNUncharacterized protein / 0.650
3esz FMNFlavodoxin / 0.650