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Mutual information without the influence of phylogeny or entropy dramatically improves residue contact prediction
A rapid, simple and general method based on information theory that accurately estimates the level of background mutual information for each pair of positions in a given protein family, and correctly identifies substantially more coevolving positions in protein families than any existing method.
Using information theory to search for co-evolving residues in proteins
The performance of various normalizations of MI in enhancing detection of co-evolving positions was assessed and it was found that normalization by the pair entropy was optimal.
Effects of the modification of transfer buffer composition and the renaturation of proteins in gels on the recognition of proteins on Western blots by monoclonal antibodies.
- S. Dunn
- BiologyAnalytical biochemistry
- 15 August 1986
Mutual information in protein multiple sequence alignments reveals two classes of coevolving positions.
It is found that coevolving positions are more likely to change protein function when mutated than are positions showing little coevolution, implying that information theory may be applied generally to find coevolved, nonconserved positions that are part of functional sites in uncharacterized protein families.
ATP synthase b subunit dimerization domain: a right-handed coiled coil with offset helices.
Stomatin-Like Protein 2 Is Required for In Vivo Mitochondrial Respiratory Chain Supercomplex Formation and Optimal Cell Function
These findings identify SLP-2 as a key regulator of the formation of RCS in vivo and show that these supercomplexes are required for optimal cell function.
The "second stalk" of Escherichia coli ATP synthase: structure of the isolated dimerization domain.
A model is constructed for the b(62-122) dimer in which the two helices form a coiled coil with a right-handed superhelical twist, which is expected for the proposed two-stranded, right- handed coiled-coil structure.
Domain compliance and elastic power transmission in rotary FOF1-ATPase
- Hendrik Sielaff, H. Rennekamp, W. Junge
- EngineeringProceedings of the National Academy of Sciences
- 18 November 2008
This work investigates the distribution in the FOF1 structure of compliant and stiff domains and finds that one domain of the rotor, namely where the globular portions of subunits γ and ε of F1 contact the c-ring of FO, was more compliant (κ ≅ 68 pNnm).
Stomatin-Like Protein 2 Binds Cardiolipin and Regulates Mitochondrial Biogenesis and Function
It is proposed that the function of SLP-2 is to recruit prohibitins to cardiolipin to form cardiolIPin-enriched microdomains in which electron transport complexes are optimally assembled and regulates mitochondrial biogenesis and function.
Decreased stability and increased formation of soluble aggregates by immature superoxide dismutase do not account for disease severity in ALS
- Kenrick A. Vassall, Helen R Stubbs, E. Meiering
- BiologyProceedings of the National Academy of Sciences
- 21 January 2011
In contrast with previous studies, it is found that various reduced apo SOD1 mutants undergo highly reversible thermal denaturation with little aggregation, enabling quantitative thermodynamic stability analyses and suggesting that reduced api S OD1 does not play a dominant role in modulating disease.