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Initial control experiments on known inhibitor-RT mutant complexes using this protocol were successful, and the predictivity for further complexes is currently being evaluated.
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Docking score and atomic contact energy (ACE) of the native and mutant complexes were calculated using Patch Dock (Table 4).
An activated rhodopsin/transducin complex using a constitutively active mutant of rhodopsin was prepared in q = 0.65 bicelles.
We next compared the rates of wild-type and mutant diVCAs binding to and dissociating from Arp2/3 complex using surface-tethered Arp2/3 complexes in the presence of actin monomers but not bound to actin filament.
Using just seven mutant complexes of finger I [see ref. (Temiz and Camacho, 2009) for details], the interaction code was solved for a seven parameter interaction potential.
Polysome microarray data from the rpl24b mutant and the pab2 pab8 mutant were collected using sucrose gradient fractionation of ribonucleoprotein complexes from Arabidopsis seedlings and were processed as described in Methods.
Lastly, the genetic analysis of gen-1 in C. elegans suggested a role of GEN-1 in worm DNA damage signaling, as mutants in this gene were isolated in a forward genetic screen for DNA damage response signaling mutants using a complex and indirect visual screen after IR exposure of L4 larvae (Bailly et al. 2010).
Thus, we were unable to accurately judge complex formation in the TRIP13E253Q/W221A double mutant using elution-volume shifts on a size exclusion column.
To model the transition state, we determined inter-protein distance-constraints of the activated complex by using double mutant cycles (DMC) assuming that interacting residues are spatially close.
We prepared equal amounts of wild-type and KQ mutant cohesin-DNA complexes and used them as substrate in an unloading reaction.
To complement the in vivo studies, we characterized the Tim9 mutants and their effects on Tim9 Tim10 complex formation using purified proteins in vitro.
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