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Electrostatic stabilization of a native protein structure in the gas phase.

Breuker K, Brüschweiler S, Tollinger M - Angew. Chem. Int. Ed. Engl. (2010)

View Article: PubMed Central - PubMed

Affiliation: Institut für Organische Chemie and Center for Molecular Biosciences Innsbruck, Universität Innsbruck, Innrain 52a, 6020 Innsbruck, Austria. kathrin.breuker@uibk.ac.at

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Recently, a general picture has been proposed of how long, and to what extent, native protein structure can be retained in the gas phase... In particular, molecular dynamics simulations suggest that salt bridges and ionic hydrogen bonds on the protein surface can transiently stabilize the global fold shortly after desolvation... We demonstrate that in the gas phase, the most stable regions are those stabilized by salt bridges and ionic hydrogen bonds... The temporal stability of nativelike KIX 7+ ions was studied by introducing a delay between ion trapping and structural probing by ECD... However, the ECD fragmentation patterns showed no significant differences for delay times of 1 μs and 2 s (see Figure S5 in the Supporting Information)... This behavior is also reflected in the site-specific transition charge values from analysis of site-specific - and -ion yields (see Figure S6 in the Supporting Information), which generally increase from the N to the C terminus (Figure 4b)... Transition charge values for cleavage sites between helix regions (31–41, 62–64) are similar to values for adjacent helix ends, indicating that helix separation does not precede helix unraveling... This observation strongly suggests that interactions involving charged residues, that is, ionic hydrogen bonds and salt bridges, largely determine helix stability in the gas phase... The density of salt bridges correlates (r=0.9999) with transition charge values (Figure 6b) even better than the density of charged residues, suggesting that salt bridges are major determinants for protein structural stabilization in the gas phase... However, this conclusion does not exclude additional stabilization by ionic hydrogen bonds as well as charge–dipole interactions... We show here that electrostatic interactions can compensate for the loss of hydrophobic bonding and stabilize the native three-helix bundle structure of KIX in the gas phase on a timescale of at least 4 s... Among these interactions, salt bridges were found to play a dominant role... However, a high number of surface-exposed charged residues alone does not guarantee protein stability in the gas phase: equine Cytochrome c has 24 basic and 12 acidic residues, with the number of salt bridges on the protein surface increasing from 6 in solution to an average value of 17.3 in the gas phase within 10 ps after desolvation, yet its native fold disintegrates on a timescale of milliseconds., The outstanding stability of gaseous KIX ions observed in this study must be attributed to the combination of favorable electrostatic interactions, including salt bridges, neutral and ionic hydrogen bonds, as well as charge–dipole interactions... KIX protein (91 residues, GSHMGVRKGW HEHVTQDLRS HLVHKLVQAI FPTPDPAALK DRRMENLVAY AKKVEGDMYE SANSRDEYYH LLAEKIYKIQ KELEEKRRSR L) was expressed in Escherichia coli cells by using a plasmid that included the CBP KIX coding region (residues 586–672; residue 586 corresponds to residue 5 in this study) and purified by Ni-affinity and size-exclusion chromatography... The purified protein was desalted as described previously.

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KIX α helices with possible salt bridges between basic (blue) and acidic (green) residues indicated by arrows.
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fig05: KIX α helices with possible salt bridges between basic (blue) and acidic (green) residues indicated by arrows.

Mentions: Although the ECD data in Figures 2 and 3 demonstrate extensive preservation of the native solution structure in the 7+ ions, its stabilization in the gas phase must be based on interactions other than hydrophobic bonding.3d,e These include neutral11 and ionic1b, 12 hydrogen bonds, charge–dipole interactions,13 and salt bridges.1b, 14 Figure 5 shows helices α1, α2, and α3 with all basic (H, K, R) and acidic (D, E) residues highlighted in color. The density of charged residues is smallest for α1 (5 out of 15 residues, 0.33) and largest for α3 (14 out of 24 residues, 0.58); α2 exhibits an intermediate density of 0.4 (8 out of 20 residues). Importantly, the charge density values correlate (r=0.9775) with transition charge values (as a measure of helix stability in the gas phase) for α1, α2, and α3 (Figure 6a). This observation strongly suggests that interactions involving charged residues, that is, ionic hydrogen bonds and salt bridges, largely determine helix stability in the gas phase.


Electrostatic stabilization of a native protein structure in the gas phase.

Breuker K, Brüschweiler S, Tollinger M - Angew. Chem. Int. Ed. Engl. (2010)

KIX α helices with possible salt bridges between basic (blue) and acidic (green) residues indicated by arrows.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3045662&req=5

fig05: KIX α helices with possible salt bridges between basic (blue) and acidic (green) residues indicated by arrows.
Mentions: Although the ECD data in Figures 2 and 3 demonstrate extensive preservation of the native solution structure in the 7+ ions, its stabilization in the gas phase must be based on interactions other than hydrophobic bonding.3d,e These include neutral11 and ionic1b, 12 hydrogen bonds, charge–dipole interactions,13 and salt bridges.1b, 14 Figure 5 shows helices α1, α2, and α3 with all basic (H, K, R) and acidic (D, E) residues highlighted in color. The density of charged residues is smallest for α1 (5 out of 15 residues, 0.33) and largest for α3 (14 out of 24 residues, 0.58); α2 exhibits an intermediate density of 0.4 (8 out of 20 residues). Importantly, the charge density values correlate (r=0.9775) with transition charge values (as a measure of helix stability in the gas phase) for α1, α2, and α3 (Figure 6a). This observation strongly suggests that interactions involving charged residues, that is, ionic hydrogen bonds and salt bridges, largely determine helix stability in the gas phase.

View Article: PubMed Central - PubMed

Affiliation: Institut für Organische Chemie and Center for Molecular Biosciences Innsbruck, Universität Innsbruck, Innrain 52a, 6020 Innsbruck, Austria. kathrin.breuker@uibk.ac.at

AUTOMATICALLY GENERATED EXCERPT
Please rate it.

Recently, a general picture has been proposed of how long, and to what extent, native protein structure can be retained in the gas phase... In particular, molecular dynamics simulations suggest that salt bridges and ionic hydrogen bonds on the protein surface can transiently stabilize the global fold shortly after desolvation... We demonstrate that in the gas phase, the most stable regions are those stabilized by salt bridges and ionic hydrogen bonds... The temporal stability of nativelike KIX 7+ ions was studied by introducing a delay between ion trapping and structural probing by ECD... However, the ECD fragmentation patterns showed no significant differences for delay times of 1 μs and 2 s (see Figure S5 in the Supporting Information)... This behavior is also reflected in the site-specific transition charge values from analysis of site-specific - and -ion yields (see Figure S6 in the Supporting Information), which generally increase from the N to the C terminus (Figure 4b)... Transition charge values for cleavage sites between helix regions (31–41, 62–64) are similar to values for adjacent helix ends, indicating that helix separation does not precede helix unraveling... This observation strongly suggests that interactions involving charged residues, that is, ionic hydrogen bonds and salt bridges, largely determine helix stability in the gas phase... The density of salt bridges correlates (r=0.9999) with transition charge values (Figure 6b) even better than the density of charged residues, suggesting that salt bridges are major determinants for protein structural stabilization in the gas phase... However, this conclusion does not exclude additional stabilization by ionic hydrogen bonds as well as charge–dipole interactions... We show here that electrostatic interactions can compensate for the loss of hydrophobic bonding and stabilize the native three-helix bundle structure of KIX in the gas phase on a timescale of at least 4 s... Among these interactions, salt bridges were found to play a dominant role... However, a high number of surface-exposed charged residues alone does not guarantee protein stability in the gas phase: equine Cytochrome c has 24 basic and 12 acidic residues, with the number of salt bridges on the protein surface increasing from 6 in solution to an average value of 17.3 in the gas phase within 10 ps after desolvation, yet its native fold disintegrates on a timescale of milliseconds., The outstanding stability of gaseous KIX ions observed in this study must be attributed to the combination of favorable electrostatic interactions, including salt bridges, neutral and ionic hydrogen bonds, as well as charge–dipole interactions... KIX protein (91 residues, GSHMGVRKGW HEHVTQDLRS HLVHKLVQAI FPTPDPAALK DRRMENLVAY AKKVEGDMYE SANSRDEYYH LLAEKIYKIQ KELEEKRRSR L) was expressed in Escherichia coli cells by using a plasmid that included the CBP KIX coding region (residues 586–672; residue 586 corresponds to residue 5 in this study) and purified by Ni-affinity and size-exclusion chromatography... The purified protein was desalted as described previously.

Show MeSH