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All subpockets across all species (except for P. promelas for which no ortholog was identified) were fully conserved for the Liver X Receptor (LXR; Figure S4, Supporting Information).

The predicted specific operator motifs of the LacI-family TFs in L. plantarum exhibit relatively little degeneracy (>8 nucleotides fully conserved for the 'CcpA-like' subfamily; see Figure 2) with one exception: the operator motif of CcpA itself.

Glu 153, another adenine-contacting position, is fully conserved except for two cases where it is substituted with glutamine and one case with aspartate, both fairly conservative substitutions.

The largest conserved syntenic blocks between birds and turtles exist in four macrochromosomes, whereas rearrangements were evident in these and other chromosomes, disproving that turtles and birds retain fully conserved macrochromosomes for greater than 300 Myr.

The comparison of active sites showed that two PSLFHA residues involved in pT binding as well those involved in stabilisation of the architecture of the binding site are fully conserved except for asparagine-65 that is replaced with a different polarity residue (arginine) in AlPSL1, AtPS1, GmPSL3 and GmPSL4 with unknown possible effect on domain architecture.

Gln 11, proposed to contact the AIR substrate, is fully conserved after correcting for an incorrect translation initiation site in Halobacterium sp. NRC-1.

Finally, columns whose occupancy was lower than 90% (positions with >10% gaps) and those fully conserved were removed for coevolution analysis.

It appears that phenotypical responses to MetR are not fully conserved in evolution; for example, a decrease of dietary methionine alone was not sufficient to enhance lifespan in the fruit fly Drosophila melanogaster.

For this, we fit the process on both fully conserved and partially conserved blocks, and those pertaining to only fully conserved blocks.

Our primary question is if the level of conserved disruptions accumulates at a rate different from that for fully conserved blocks.

As a hybridization quality control, we added a probe for a fully conserved region of VP1 of the FMDV (ICF), discarding those arrays for which the log2 of the average intensity for this probe was under 7, in our experience a threshold that distinguishes arrays with hybridization problems from the normal ones.