PMC:2728246 / 36072-38717
Annnotations
{"target":"http://pubannotation.org/docs/sourcedb/PMC/sourceid/2728246","sourcedb":"PMC","sourceid":"2728246","source_url":"https://www.ncbi.nlm.nih.gov/pmc/2728246","text":"The relaxation-based order parameters are represented in a correlation plot against the corresponding model-free RDC-based order parameters from our analysis and on a per-residue context in Fig. 4a and b. In both figures, for all but a single residue, the condition described by (10) is respected within the error ranges. It can also be appreciated from those figures that the is much smaller than for a large majority of residues. Not surprisingly, this indicates that there are very important additional motions present in the ns–μs time scale, which are invisible to relaxation. The mean and standard deviation for corresponding sets of methyl groups are ± σ = 0.66 ± 0.25 and ± σ = 0.43 ± 0.25. An estimate of the extent of the supra-τc order parameters gives indicating that there is almost as much mobility present in the supra-τc as in the sub-τc ranges for methyl groups This supra-τc mobility of the methyl groups has much larger amplitude than what was observed for amide groups in the same time window. From a similar comparison, the respective amount of backbone motion in the supra-τc region was observed to be on the order of = 0.93 (Lakomek et al. 2008a). Despite these large differences, the order parameters on both scales show a correlation coefficient of r = 0.72, suggesting that a fair portion of the additional mobility in the supra-τc region can be interpreted mostly as a “broadening” of the amplitude of motion.\nFig. 4 Methyl order parameters measured by other methods are plotted against order parameters obtained from RDCs in ubiquitin (a, c, g, e) and against residue position (b, d, f, h) in color ( are in black). a,b are obtained from 2H relaxation experiments (Lee et al. 1999) and sample motions faster than the correlation time. c,d are obtained from the CxH dipolar splitting reduction for ubiquitin in a microcrystalline form using separated local field experiments by solid-state NMR under magic-angle spinning condition. of CxHx are plotted with the of CxCmet. These values are obtained by squaring the values reported by (Lorieau and McDermott 2006). The time scale sampled also includes the ns–ms range. e,f obtained from rotameric fitting of χ1 based on averaged 3JNCγ- and 3JC′Cγ-couplings and on CH RDCs according to (Chou et al. 2003). These order parameters are based on a finite rotameric jump model and sample dynamics over similar time scales. g,h The same order parameters are multiplied by S2(NH)LS for the same residue (i, green) and for the following residue (i + 1, red) to include rapid small-scale fluctuations. The Pearson correlation r (with p value) and rmsd fit are also given","divisions":[{"label":"label","span":{"begin":1444,"end":1450}}],"tracks":[{"project":"2_test","denotations":[{"id":"19652920-16939274-56190986","span":{"begin":2092,"end":2096},"obj":"16939274"},{"id":"19652920-12862493-56190987","span":{"begin":2282,"end":2286},"obj":"12862493"}],"attributes":[{"subj":"19652920-16939274-56190986","pred":"source","obj":"2_test"},{"subj":"19652920-12862493-56190987","pred":"source","obj":"2_test"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"2_test","color":"#c693ec","default":true}]}]}}