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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
4d79 ATP tRNA threonylcarbamoyladenosine dehydratase 6.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4d79 ATPtRNA threonylcarbamoyladenosine dehydratase 6.1 1.108
4rdi ATPtRNA threonylcarbamoyladenosine dehydratase 6.1 0.863
1y8q ATPSUMO-activating enzyme subunit 2 6.3.2 0.747
3h9j APCMccB protein / 0.692
3wv7 ADPHmd co-occurring protein HcgE / 0.682
4nec SAHPutative SAM-dependent methyltransferase / 0.676
1uay ADNOxidoreductase / 0.672
2bzg SAHThiopurine S-methyltransferase 2.1.1.67 0.672
4iv8 SAMPhosphoethanolamine N-methyltransferase,putative / 0.672
3tm4 SAMUncharacterized protein / 0.671
2pan FADGlyoxylate carboligase 4.1.1.47 0.670
1bc5 SAHChemotaxis protein methyltransferase 2.1.1.80 0.669
2gs9 SAHUncharacterized protein / 0.669
2plw SAMRibosomal RNA methyltransferase, putative / 0.669
4b67 FADL-ornithine N(5)-monooxygenase / 0.667
4rtj SFGDNA adenine methylase 2.1.1.72 0.663
2vhx NADAlanine dehydrogenase 1.4.1.1 0.661
2ore SAHDNA adenine methylase 2.1.1.72 0.660
3lov FADProtoporphyrinogen oxidase / 0.660
4tlz FADKtzI / 0.659
3bwc SAMSpermidine synthase, putative / 0.658
3go4 SAHUncharacterized protein / 0.658
3h5n ATPMccB protein / 0.656
3ldf SAHUncharacterized protein / 0.654
4em4 FADCoenzyme A disulfide reductase / 0.654
1eg2 MTAModification methylase RsrI 2.1.1.72 0.653
4nte FADDepH / 0.651
2qe6 SAMUncharacterized protein / 0.650