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Structural comparisons of the RT subunits and the p51 monomer indicate that the most significant conformational variations are observed for the palm thumb connecting segment (residues 212 240) and for the connection domain.
The function of the connection domain has not been fully characterized.
Additionally, Cane et al. correlated some mutations in the RT connection domain with TAMs, G359S, A360V/T and A371V [31].
For the RT connection domain, we have obtained 510 isolates from the public databases for further analysis.
Subtype B represented alone 51% (260/510) of thumb and connection domain strains and 51% (288/568) of RNase H domain strains in our analysis.
While 26% of thumb and connection domain sequences from drug-naïve subjects were represented by subtype B, this proportion among treated subjects was of 82%.
Nine changes in the connection domain and 6 in the RNase H domain were found related to treatment (Figures 2 and 3).
Similar(4)
Five hundred and ten sequences of thumb and connection domains (RT codons 298-440) weretrievedved from the databases, of which 280 were treatment-naïve (HIV-1 subtype composition: 38 A, 72 B, 73 C, 34 D, 6 F, 4 G, 1 H, 1 K, 44 CRF01_andand 7 CRF02_and and 230 were NRTI-treated (10 A, 188 B, 4 C, 4 D, 20 CRF01_andand 4 CRF02_AG).
The initially formed homodimer contains two folded RH domains and two immature connection domains.
Initial dimer formation probably involves non-specific hydrophobic contacts between the connection domains.
Consequently, initial dimer formation involving the connection domains prior to this conformational change must include many non-specific hydrophobic contacts.
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