All 6000 groups of 31 uniform 6V5D subsets have mean I13 order less than 0.69.
We sampled 100,000 uniform subsets of each size from 13 to 18 from the 176 human ubiquitin models in PDB 6V5D. For the CB–CG2 axis of isoleucine 13, 572 to 84 subsets per size reached order 0.69 in the primary fixed frame; counts in the second fitting frame were similar. Across 1,000 groups per size, every mean of the first 31 subset values and every mean of the largest 31 values was below 0.69 in both frames. The largest primary-frame means were 0.3913 and 0.4943, respectively. Zero of 1,000 groups per size and frame crossed the threshold for either mean statistic; each 95% Clopper–Pearson interval was [0, 0.003682]. These intervals describe Monte Carlo uncertainty conditional on the deposited coordinates and sampler. They do not include measurement error or multiple-comparison correction. Direct ranking by I13 order does not reproduce the article’s NOE-based selection, and the single-subset tail does not give a probability for its selected mean. The calculation does not estimate biological population weights, motion rates, or causes.
ubiquitin · NMR ensemble · I13 order · uniform subsets · Monte Carlo · Procrustes fitting · Protein Data Bank
References
4- usesThe two coordinate alignments change methyl axis order by at most 0.010554 in the 176-model 6V5D ensemble. sci:sha256:42040036a175129b5070d1cf44b1eb8534de3d8296e220ce2aa74bb073b2a79d
We used the I13 CB–CG2 axis definition, the CA 1–70 and 1–76 fitting masks, and the exact uniform-subset mean formula. These inputs made the full-ensemble reproduction and the expanded subset controls possible.
- usesdoi:10.2210/pdb6v5d%2Fpdb
The calculation uses all 176 coordinate models in chain A of PDB 6V5D, revision 1.2.
- supportsdoi:10.1007/s10858-019-00288-8
This article reports the reference mean I13 order of 0.69 for 31 selected ensembles.
- doi:10.1021/acs.jpcb.4c04895
Cited by
1 publicationPublic catalog entries on Sciscape.
- In 1,000,000 paired 6V5D samples, 1,123 size-18 subsets and 851 size-17 subsets have I13 order ≥ 0.69.
[Legacy relation: reproduces] New code reproduces only its four Q ≥ 0.69 counts from 100,000 single-subset samples at sizes 17 and 18, with the two full-ensemble fits and the stated seeds. We do not repeat its groups of 31 subsets.