2MD3

Fragment based approach and binding behavior of LFampinB with Lipopolysaccharide:biophysical aspects

Summary for 2MD3

• Entry DOI: 10.2210/pdb2md3/pdb
• Related: 2MD1 2MD2 2MD4
• NMR Information: BMRB: 19470
• Descriptor: Lactotransferrin (1 entity in total)
• Functional Keywords: antimicrobial protein
• Biological source: Bos taurus (bovine)
• Cellular location: Secreted: P24627
• Total number of polymer chains: 1
• Total formula weight: 968.15

Authors

Bhunia, A.,Chatterjee, S.,Ghosh, A.,Jana, J. (deposition date: 2013-08-29, release date: 2013-09-25, Last modification date: 2024-05-15)

Primary citation

Ghosh, A.,Datta, A.,Jana, J.,Kar, R.K.,Chatterjee, C.,Chatterjee, S.,Bhunia, A.
Sequence context induced antimicrobial activity: insight into lipopolysaccharide permeabilization.
Mol Biosyst, 10:1596-1612, 2014

PubMed Abstract: Lactoferrampin (WR17, Trp 268-Arg 284), an antimicrobial peptide, is known to have significant antibacterial and candidacidal activities. However, there are no previous studies explaining how WR17 permeabilizes the outer membrane of Gram negative bacteria and neutralizes endotoxins. In this study we used a series of assays like antimicrobial activity, calcein leakage, NPN dye uptake and endotoxin neutralization assay to show that the sequence context of WR17 modulates its multi-faceted activities. We determined the high resolution NMR structure of WR17 in LPS and found that the N-ter region forms a helix (Trp1-Phe11) and orients itself at an angle of 45° into the lipopolysaccharide (LPS) micelle, whereas the C-ter region (Lys13-Arg17) remains as a flexible extended random coil. We also verified this result through in silico molecular modeling simulation. Isothermal titration calorimetry showed that the interaction of WR17 and its analogues with LPS was primarily endothermic in nature. Using several fluorescence techniques such as anisotropy and red edge excitation shift assay we revealed motional restriction for Trp1 of WR17 in LPS. The distance between the indole ring of Trp1 of WR17 and the polar head group of LPS is around 7 Å, as obtained from the depth of insertion assay. Additionally, MD simulation demonstrated that the incorporation of the peptide in LPS is achieved with the help of the K(13)xK(15)xR(17) motif at the C-terminus. This novel anchoring "K(13)NKSR(17)" motif is currently being utilized in our ongoing research to design novel anti-endotoxic molecules.

PubMed: 24714742
DOI: 10.1039/c4mb00111g

Experimental method

SOLUTION NMR