Dataset Information

Design of Peptides for Membrane Insertion: The Critical Role of Charge Separation.

ABSTRACT: A physical understanding of membrane permeation and translocation by small, positively charged molecules can illuminate cell penetrating peptide mechanisms of entry and inform drug design. We have previously investigated the permeation of the doubly charged peptide WKW and proposed a defect-assisted permeation mechanism where a small molecule with +2 charge can achieve a metastable state spanning the bilayer by forming a membrane defect with charges stabilized by phospholipid phosphate groups. Here, we investigate the membrane permeation of two doubly charged peptides, WWK and WWWK, with charges separated by different lengths. Through complementary experiments and molecular dynamics simulations, we show that membrane permeation was an order of magnitude more favorable when charges were separated by an ∼2-3 Å greater distance on WWWK compared to WWK. These results agree with the previously proposed defect-assisted permeation mechanism, where a greater distance between positive charges would require a less extreme membrane defect to stabilize the membrane-spanning metastable state. We discuss the implications of these results in understanding the membrane permeation of cell-penetrating peptides and other small, positively charged membrane permeants.

SUBMITTER: Povilaitis SC

PROVIDER: S-EPMC9541189 | biostudies-literature | 2022 Sep

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Design of Peptides for Membrane Insertion: The Critical Role of Charge Separation.

Povilaitis Sydney C SC Fathizadeh Arman A Kogan Molly M Elber Ron R Webb Lauren J LJ

The journal of physical chemistry. B 20220823 34

A physical understanding of membrane permeation and translocation by small, positively charged molecules can illuminate cell penetrating peptide mechanisms of entry and inform drug design. We have previously investigated the permeation of the doubly charged peptide WKW and proposed a defect-assisted permeation mechanism where a small molecule with +2 charge can achieve a metastable state spanning the bilayer by forming a membrane defect with charges stabilized by phospholipid phosphate groups. H ...[more]

PMID: 35997537

Similar Datasets

Project description:Multidimensional peptide fractionation is widely used in proteomics to reduce the complexity of peptide mixtures prior to mass spectrometric analysis. Here, we describe the sequential use of strong cation exchange and reversed phase liquid chromatography in both basic and acidic pH buffers for separating tryptic peptides from complex mixtures of proteins. Strong cation exchange exclusively separates peptide by their charge state into neutral, singly and multi-charged species. To further reduce complexity, each peptide group was separated by reversed phase liquid chromatography at basic pH and the resultant fractions were analyzed by LC-MS/MS. This workflow was applied to a soluble protein lysate from mouse embryonic fibroblast cells were more than 5000 proteins from 30470 peptides were identified. The high selectivity displayed during the SCX step (95% to 100%) and the overlaps between proteins identified from the SCX-separated peptide groups, result in additional assets of the procedure that significantly increase the confidence of protein identifications. Raw data files were processed with Mascot Distiller (2.2), the mgf files were searched with Mascot Daemon (2.4), all data was stored in ms_lims Fixed modifications: cysteine alkylation Variable modifications: methionine oxidation, protein N-terminus acetylation, pyroglutamate formation of N-terminal glutamine, cyclic carbamate formation of N-terminal threonine or serine Enzyme: trypsin/P with 2 missed cleavages allowed Precursor mass tolerance: 10 ppm Peptide fragment mass tolerance: 0.5 Da Database: Swiss Prot mouse (version 56.4) The xml files of RH0 - RH1 - RH2 CID were created with pride converter 2.5.5 because this is still able to link to ms_lims. The old converter can not deal with ETD spectra, so the xml file of RH2 ETD was created with the new pride converter 2.0.3. But there is no link possible with ms_lims here, the dat files were used for xml file creation. Because of this, there's a small difference between the number of proteins and peptides in the xml file and the ones reported in the manuscript. Therefor, an extra excel file is submitted that contains all of the ETD identifications that were used in the manuscript.

Dataset Information

Design of Peptides for Membrane Insertion: The Critical Role of Charge Separation.

Publications

Design of Peptides for Membrane Insertion: The Critical Role of Charge Separation.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets