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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
5by6 UMP Thymidylate synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5by6 UMPThymidylate synthase / 1.142
4e5o UMPThymidylate synthase 2.1.1.45 1.047
4ein NOHThymidylate synthase 2.1.1.45 1.037
4dq1 UMPThymidylate synthase / 1.012
3dga UMPBifunctional dihydrofolate reductase-thymidylate synthase 1.5.1.3 0.987
4dpd UMPBifunctional dihydrofolate reductase-thymidylate synthase / 0.971
4eil UMPBifunctional dihydrofolate reductase-thymidylate synthase 1.5.1.3 0.960
4fox UMPThymidylate synthase ThyA / 0.956
2fto TMPThymidylate synthase / 0.950
4irr UMPThymidylate synthase / 0.947
4isk UMPThymidylate synthase / 0.939
1f28 UMPThymidylate synthase 2.1.1.45 0.934
4eb4 UMPThymidylate synthase 2.1.1.45 0.923
1b5e DCMDeoxycytidylate 5-hydroxymethyltransferase 2.1.2.8 0.918
1tys TMPThymidylate synthase / 0.911
3bgx TMPThymidylate synthase / 0.891
1b5d DCMDeoxycytidylate 5-hydroxymethyltransferase 2.1.2.8 0.883
3qj7 UMPThymidylate synthase ThyA / 0.870
4psg NOHThymidylate synthase / 0.855
1bid UMPThymidylate synthase / 0.849
4iqq UMPThymidylate synthase / 0.834
2vet UMPThymidylate synthase / 0.823
2g86 UMPThymidylate synthase / 0.818
3dg8 UMPBifunctional dihydrofolate reductase-thymidylate synthase 1.5.1.3 0.809
4h0u UMPThymidylate synthase / 0.809
2tdm UMPThymidylate synthase / 0.808
2tsr UMPThymidylate synthase 2.1.1.45 0.786
1nja DCMThymidylate synthase / 0.783
1bp0 UMPThymidylate synthase / 0.778
1tsv UMPThymidylate synthase / 0.777
1tsx UMPThymidylate synthase / 0.767
1j3j UMPBifunctional dihydrofolate reductase-thymidylate synthase 1.5.1.3 0.763
1vzb UMPThymidylate synthase / 0.763
2g8a UMPThymidylate synthase / 0.763
1njc DCMThymidylate synthase / 0.761
1vza UMPThymidylate synthase / 0.746
1tsy UMPThymidylate synthase / 0.743
2g8d UMPThymidylate synthase / 0.741
1tdu DURThymidylate synthase / 0.737
1njd UMPThymidylate synthase / 0.733
2g89 UMPThymidylate synthase / 0.733
3lzx NAPFerredoxin--NADP reductase 2 1.18.1.2 0.715
1njb UMPThymidylate synthase / 0.710
1jmf UMPThymidylate synthase / 0.704
1bp6 UMPThymidylate synthase / 0.699
4eet FMNPhototropin-2 2.7.11.1 0.690
1jmi UMPThymidylate synthase / 0.687
1jmh UMPThymidylate synthase / 0.681
2wba NDPTrypanothione reductase 1.8.1.12 0.667
1bpj UMPThymidylate synthase / 0.666
3c1o NAPEugenol synthase / 0.664
3koy Z97D-ornithine 4,5-aminomutase subunit beta / 0.664
4xsd UMPThymidylate synthase 2.1.1.45 0.663
1bdu DURThymidylate synthase / 0.659
3q6j KPC2-oxopropyl-CoM reductase, carboxylating 1.8.1.5 0.659
5f1c ATPUncharacterized protein / 0.659
4hs4 FMNChromate reductase / 0.658
3hb8 UMPThymidylate synthase 2.1.1.45 0.657
1njf ADPDNA polymerase III subunit tau 2.7.7.7 0.656
1nje DCMThymidylate synthase / 0.655
3ubm COAFormyl-CoA:oxalate CoA-transferase / 0.655
2eg8 FOTDihydroorotase 3.5.2.3 0.650
3dk4 NDPGlutathione reductase, mitochondrial 1.8.1.7 0.650
4gdy 0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial 2.6.1.39 0.650