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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
4ycoFMNtRNA-dihydrouridine(16) synthase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4ycoFMNtRNA-dihydrouridine(16) synthase/1.000
4ycpFMNtRNA-dihydrouridine(16) synthase/0.611
4bf9FMNtRNA-dihydrouridine(16) synthase/0.572
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.479
1icsFMN12-oxophytodienoate reductase 11.3.1.420.464
2abbFMNPentaerythritol tetranitrate reductase/0.463
2g226IGRenin3.4.23.150.463
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.461
1h50FMNPentaerythritol tetranitrate reductase/0.459
3qt62P0Mevalonate diphosphate decarboxylase/0.456
4briUNPEctonucleoside triphosphate diphosphohydrolase I/0.456
2gjlFMNNitronate monooxygenase1.13.12.160.455
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.455
3tjzGNPADP-ribosylation factor 1/0.455
1h60STRPentaerythritol tetranitrate reductase/0.454
1h63FMNPentaerythritol tetranitrate reductase/0.454
1vhnFMNtRNA-dihydrouridine synthase/0.454
2gjnFMNNitronate monooxygenase1.13.12.160.450
3p62FMNPentaerythritol tetranitrate reductase/0.450
1szfFMNCytochrome b2, mitochondrial1.1.2.30.449
2g1r3IGRenin3.4.23.150.449
2q1sNAIPutative nucleotide sugar epimerase/ dehydratase/0.449
5a0yCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.10.449
5a0yCOMMethyl-coenzyme M reductase I subunit beta2.8.4.10.449
2g1s4IGRenin3.4.23.150.448
2q46NAPUncharacterized protein At5g02240/0.447
1vyrFMNPentaerythritol tetranitrate reductase/0.446
2hs8FMN12-oxophytodienoate reductase 31.3.1.420.446
1icqFMN12-oxophytodienoate reductase 11.3.1.420.445
1egeFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.444
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
3f03FMNPentaerythritol tetranitrate reductase/0.444
3hgrFMN12-oxophytodienoate reductase 11.3.1.420.444
4e2dFMNDehydrogenase/0.444
4rnvFMNNADPH dehydrogenase 11.6.99.10.444
4tmcFMNOld yellow enzyme/0.444
1f8fNADBenzyl alcohol dehydrogenase/0.443
2f3rG5PGuanylate kinase2.7.4.80.443
3p67FMNPentaerythritol tetranitrate reductase/0.443
3zgz84TLeucine--tRNA ligase/0.443
4a3uFMNNADH:flavin oxidoreductase/NADH oxidase/0.442
4bfzZVZPantothenate kinase2.7.1.330.442
4gdcNDPUDP-galactopyranose mutase/0.442
3m2uCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.10.441
4lutDCSAlanine racemase/0.441
2q85973UDP-N-acetylenolpyruvoylglucosamine reductase1.3.1.980.440
3p82FMNPentaerythritol tetranitrate reductase/0.440
3p84FMNPentaerythritol tetranitrate reductase/0.440