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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
1dfo PLG Serine hydroxymethyltransferase 2.1.2.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1dfo PLGSerine hydroxymethyltransferase 2.1.2.1 1.061
4wxg 2BOSerine hydroxymethyltransferase / 0.918
4wxf PLGSerine hydroxymethyltransferase / 0.852
3ei8 PL5LL-diaminopimelate aminotransferase, chloroplastic / 0.710
4dbc 3QPAspartate aminotransferase 2.6.1.1 0.700
1akb PPDAspartate aminotransferase, mitochondrial 2.6.1.1 0.688
4itx IN5Cystathionine beta-lyase MetC 4.4.1.8 0.686
1akc PPEAspartate aminotransferase, mitochondrial 2.6.1.1 0.681
1x28 PGUAspartate aminotransferase 2.6.1.1 0.681
3aej AA5Methionine gamma-lyase / 0.677
1arh PPDAspartate aminotransferase 2.6.1.1 0.675
1map KETAspartate aminotransferase, mitochondrial 2.6.1.1 0.673
4eb5 PLPCysteine desulfurase IscS 2 / 0.671
4bqw QNMEgl nine homolog 1 / 0.667
3dds 26BGlycogen phosphorylase, liver form 2.4.1.1 0.665
1cq7 PY5Aspartate aminotransferase 2.6.1.1 0.664
3tqx PLP2-amino-3-ketobutyrate coenzyme A ligase / 0.664
1ahg TYR_PLPAspartate aminotransferase 2.6.1.1 0.663
1arg PPDAspartate aminotransferase 2.6.1.1 0.663
3qpg 3QPAspartate aminotransferase 2.6.1.1 0.663
1cq8 PY6Aspartate aminotransferase 2.6.1.1 0.662
2gqn BLPCystathionine beta-lyase MetC 4.4.1.8 0.659
1cq6 PY4Aspartate aminotransferase 2.6.1.1 0.655
3vax PLPUncharacterized protein / 0.654
4ge4 0KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial 2.6.1.39 0.651