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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
2okl BB2 Peptide deformylase 2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2okl BB2Peptide deformylase 2 / 1.093
3uwb BB2RIIA-RIIB membrane-associated protein / 0.924
1lqy BB2Peptide deformylase 2 3.5.1.88 0.921
3pn4 BB2Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 0.899
1lru BB2Peptide deformylase 3.5.1.88 0.887
3m6p BB2Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 0.861
2os1 BB2Peptide deformylase / 0.858
3u04 BB2Peptide deformylase / 0.846
2os3 BB2Peptide deformylase / 0.843
4e9b BB2Peptide deformylase / 0.842
4je7 BB2Peptide deformylase 1A, chloroplastic/mitochondrial 3.5.1.88 0.839
3m6r BB2Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 0.827
1ix1 BB2Peptide deformylase / 0.808
1lry BB2Peptide deformylase / 0.806
3g5k BB2Peptide deformylase, mitochondrial 3.5.1.88 0.805
1g2a BB2Peptide deformylase 3.5.1.88 0.801
1ws1 BB2Peptide deformylase 1 / 0.763
2ai7 SB7Peptide deformylase / 0.727
1g27 BB1Peptide deformylase 3.5.1.88 0.723
4q4e BB2Aminopeptidase N 3.4.11.2 0.717
3m6q BB2Peptide deformylase 1B, chloroplastic/mitochondrial 3.5.1.88 0.705
3kme INNDisintegrin and metalloproteinase domain-containing protein 17 3.4.24.86 0.679
3sw8 5LIPeptide deformylase / 0.671
2aia SB8Peptide deformylase / 0.661
1rm8 BATMatrix metalloproteinase-16 3.4.24 0.658