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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
3kfl ME8 Putative methionyl-tRNA synthetase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3kfl ME8Putative methionyl-tRNA synthetase / 1.285
2ct8 MSPMethionine--tRNA ligase 6.1.1.10 0.865
1pfy MSPMethionine--tRNA ligase 6.1.1.10 0.778
1pg0 MODMethionine--tRNA ligase 6.1.1.10 0.767
3i5x ANPATP-dependent RNA helicase MSS116, mitochondrial 3.6.4.13 0.676
1bmf ADPATP synthase subunit alpha, mitochondrial / 0.668
1bmf ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.668
3ziu LSSLeucyl-tRNA synthetase / 0.663
1kqm ANPMyosin heavy chain, striated muscle / 0.662
1mmg AGSMyosin-2 heavy chain / 0.658
1fnn ADPORC1-type DNA replication protein / 0.656
4ag5 ADPType IV secretory pathway VirB4 components-like protein / 0.656
3sqw ANPATP-dependent RNA helicase MSS116, mitochondrial 3.6.4.13 0.655
1mf0 GDPAdenylosuccinate synthetase isozyme 1 / 0.653
3mle ADPATP-dependent dethiobiotin synthetase BioD 6.3.3.3 0.653
2cv2 GSUGlutamate--tRNA ligase 6.1.1.17 0.652