State Equation for the Three-Dimensional System of "Collapsing" Hard Spheres

Klebanov, Igor R.; Ginchitskii, N.; Gritsay, P.

doi:10.1142/s0217984908017679

Cited by 3 publications

(2 citation statements)

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“…Structure factors at 10 and 54 mg/mL were obtained by division of the measured SANS and SAXS data at high concentration by the protein form factor. At 10 mg/mL, the structure factor was found to be close to unity, and at 54 mg/mL, the structure factor showed modulations, which could be described by an effective hard sphere structure factor 20 with a fitted volume fraction of ϕ = 3.3% and an effective hard sphere radius of R HS = 41 Å (see Figure S2). The MBP solution is well below the critical overlap concentration c* = M/(4/3πN A R G 3 ) of 202 (188) mg/mL for the R G determined by SAXS (SANS).…”

Section: Resultsmentioning

confidence: 95%

Internal Nanosecond Dynamics in the Intrinsically Disordered Myelin Basic Protein

et al. 2014

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Intrinsically disordered proteins lack a well-defined folded structure and contain a high degree of structural freedom and conformational flexibility, which is expected to enhance binding to their physiological targets. In solution and in the lipid-free state, myelin basic protein belongs to that class of proteins. Using small-angle scattering, the protein was found to be structurally disordered similar to Gaussian chains. The combination of structural and hydrodynamic information revealed an intermediary compactness of the protein between globular proteins and random coil polymers. Modeling by a coarse-grained structural ensemble gave indications for a compact core with flexible ends. Neutron spin-echo spectroscopy measurements revealed a large contribution of internal dynamics to the overall diffusion. The experimental results showed a high flexibility of the structural ensemble. Displacement patterns along the first two normal modes demonstrated that collective stretching and bending motions dominate the internal modes. The observed dynamics represent nanosecond conformational fluctuations within the reconstructed coarse-grained structural ensemble, allowing the exploration of a large configurational space. In an alternative approach, we investigated if models from polymer theory, recently used for the interpretation of fluorescence spectroscopy experiments on disordered proteins, are suitable for the interpretation of the observed motions. Within the framework of the Zimm model with internal friction (ZIF), a large offset of 81.6 ns is needed as an addition to all relaxation times due to intrachain friction sources. The ZIF model, however, shows small but systematic deviations from the measured data. The large value of the internal friction leads to the breakdown of the Zimm model.

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Section: Resultsmentioning

confidence: 95%

Internal Nanosecond Dynamics in the Intrinsically Disordered Myelin Basic Protein

et al. 2014

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“…In summary, the approximation presented in Ref. 7 is not the solution of the PY integral equation for the interaction potential (1), in contrast to what is claimed by Klebanov et al The flaw in their derivation could be due to the fact that, at a given point, the authors discard the product G(t)F (−t) when manipulating Eq.…”

Section: Resultsmentioning

confidence: 86%

Comments on "State Equation for the Three-Dimensional System of 'Collapsing' Hard Spheres"

Santos

2009

Mod. Phys. Lett. B

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andres@unex.esA recent paper [I. Klebanov et al. Mod. Phys. Lett. B 22 (2008) 3153; arXiv:0712.0433] claims that the exact solution of the Percus-Yevick (PY) integral equation for a system of hard spheres plus a step potential is obtained. The aim of this paper is to show that Klebanov et al.'s result is incompatible with the PY equation since it violates two known cases: the low-density limit and the hard-sphere limit.

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Pseudopotential calculation of the structure and thermodynamics of liquid alkali metals with a square-well model as a reference system

2012

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State Equation for the Three-Dimensional System of "Collapsing" Hard Spheres

Cited by 3 publications

References 12 publications

Internal Nanosecond Dynamics in the Intrinsically Disordered Myelin Basic Protein

Internal Nanosecond Dynamics in the Intrinsically Disordered Myelin Basic Protein

Comments on "State Equation for the Three-Dimensional System of 'Collapsing' Hard Spheres"

Pseudopotential calculation of the structure and thermodynamics of liquid alkali metals with a square-well model as a reference system

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