Some of these conserved residues locate in the active center and interact with a number of highly conserved connections (that is, β4, β5, and β7 of the 8-barrel), such as the carboxyl groups of Trp273, Arg245, and Phe292 form hydrogen bonds with acarbose and predicted to be substrate-binding sites [ 15].
In scale free networks, a few nodes called hubs have higher degree than other nodes and play dominant role to conserve connections of the overall networks.
The results are summarized in Tables 1, 2 and 4. As expected, we found a conserved regulatory connection between GlnR and the glnRA operon in all analyzed species and with tnrA in all Bacilli.
The short inserts (27 bp) found in s2 strains were highly conserved, and no connection with geographic origin was identified.
In contrast to the high conservation seen in residues that contact nucleic acids in the RNase H domain, only two residues were highly conserved in the connection domain (H361 and T362; Figure 1).
This observation may suggest that feedbacks can be conserved even when connections are rewired.
For instance, proteins with many connections are conserved to a greater extent than proteins with few connections [7], [8], [9], [10].
To improve the detection specificity, we implemented an additional constraint related to the conserved head-to-tail connection module organisation observed among most of the phages.
These results provide compelling evidence for the involvement of Slc39a13 and zinc signalling in the BMP/TGF-beta pathways, and indicate that this connection is conserved in the vertebrate lineage.
For all analyzed species, the link L➝gene was slightly more conserved in non-motif connections compared to the FFL ones.
