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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
3vqx BLK Pyrrolysine--tRNA ligase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3vqx BLKPyrrolysine--tRNA ligase / 1.245
4bwa N0BPyrrolysine--tRNA ligase / 0.774
2q7h YLYPyrrolysine--tRNA ligase / 0.720
2zio AYBPyrrolysine--tRNA ligase / 0.719
3a5z KAAElongation factor P--(R)-beta-lysine ligase / 0.693
3vqv ANPPyrrolysine--tRNA ligase / 0.692
3tw6 ADPPyruvate carboxylase / 0.682
3ta0 ATPNitrogen regulatory protein P-II (GlnB-3) / 0.679
3a5y KAAElongation factor P--(R)-beta-lysine ligase / 0.677
1c0a AMOAspartate--tRNA ligase / 0.671
1ses AHXSerine--tRNA ligase 6.1.1.11 0.660
3k1j ADPATP-dependent protease Lon / 0.660
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.658
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.657
3e9h KAALysine--tRNA ligase 6.1.1.6 0.655
5ce3 ADPProtein kinase YopO / 0.654
4mam A12N5-carboxyaminoimidazole ribonucleotide synthase / 0.653
3rv4 ADPBiotin carboxylase 6.3.4.14 0.651
3hu3 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.650
4xeo A5AAlanine--tRNA ligase, cytoplasmic / 0.650