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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
3u04 BB2 Peptide deformylase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3u04 BB2Peptide deformylase / 1.155
3uwb BB2RIIA-RIIB membrane-associated protein / 0.953
3pn4 BB2Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 0.918
3m6p BB2Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 0.906
4e9b BB2Peptide deformylase / 0.884
1ws1 BB2Peptide deformylase 1 / 0.880
1lru BB2Peptide deformylase 3.5.1.88 0.870
2okl BB2Peptide deformylase 2 / 0.846
3g5k BB2Peptide deformylase, mitochondrial 3.5.1.88 0.834
3m6r BB2Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 0.820
1g2a BB2Peptide deformylase 3.5.1.88 0.816
3m6q BB2Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 0.814
1lqy BB2Peptide deformylase 2 3.5.1.88 0.812
1ix1 BB2Peptide deformylase / 0.780
1lry BB2Peptide deformylase / 0.771
4je7 BB2Peptide deformylase 1A, chloroplastic/mitochondrial 3.5.1.88 0.765
2os3 BB2Peptide deformylase / 0.732
1g27 BB1Peptide deformylase 3.5.1.88 0.720
4q4e BB2Aminopeptidase N 3.4.11.2 0.714
4wxl BB2Peptide deformylase / 0.711
2os1 BB2Peptide deformylase / 0.710
3l0t INNDisintegrin and metalloproteinase domain-containing protein 17 3.4.24.86 0.678
3e3u NVCPeptide deformylase 3.5.1.88 0.661