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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
3pn4 BB2 Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3pn4 BB2Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 1.158
3uwb BB2RIIA-RIIB membrane-associated protein / 1.009
3m6p BB2Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 1.003
3m6r BB2Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 0.965
3u04 BB2Peptide deformylase / 0.918
2okl BB2Peptide deformylase 2 / 0.899
4e9b BB2Peptide deformylase / 0.887
1ws1 BB2Peptide deformylase 1 / 0.849
1ix1 BB2Peptide deformylase / 0.841
3m6q BB2Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 0.839
1g2a BB2Peptide deformylase 3.5.1.88 0.830
4je7 BB2Peptide deformylase 1A, chloroplastic/mitochondrial 3.5.1.88 0.812
1lru BB2Peptide deformylase 3.5.1.88 0.793
1lqy BB2Peptide deformylase 2 3.5.1.88 0.783
3g5k BB2Peptide deformylase, mitochondrial 3.5.1.88 0.776
2os1 BB2Peptide deformylase / 0.767
2os3 BB2Peptide deformylase / 0.767
1lry BB2Peptide deformylase / 0.762
4wxl BB2Peptide deformylase / 0.722
1g27 BB1Peptide deformylase 3.5.1.88 0.708
2ai7 SB7Peptide deformylase / 0.679
3l0t INNDisintegrin and metalloproteinase domain-containing protein 17 3.4.24.86 0.678
3e3u NVCPeptide deformylase 3.5.1.88 0.661
4pkw GM6Lethal factor 3.4.24.83 0.660
4eox 0S5Peptide deformylase / 0.658