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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
4dpg APC Lysine--tRNA ligase 6.1.1.6

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4dpg APCLysine--tRNA ligase 6.1.1.6 0.846
1jsz NDMCap-specific mRNA (nucleoside-2'-O-)-methyltransferase 2.1.1.57 0.744
3gcm 5GPPolyribonucleotide nucleotidyltransferase / 0.672
2vcz VC3Hematopoietic prostaglandin D synthase / 0.667
1i7c MGBS-adenosylmethionine decarboxylase proenzyme 4.1.1.50 0.660
2ofi ADK3-methyladenine DNA glycosylase I / 0.660
3jqc JU2Pteridine reductase, putative / 0.657
3jvh HHV2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase / 0.657
1e92 HBIPteridine reductase 1 1.5.1.33 0.656
3dyl IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A / 0.655
5iu8 6DZAdenosine receptor A2a / 0.655
3o3j BB4Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 0.654
1vhz APRADP compounds hydrolase NudE 3.6.1 0.651
3q2m CKISpectinomycin phosphotransferase / 0.651