Authors' response : We have altered the Material and Methods to provide more extensive details regarding the procedures we followed with respect to sequence and structure analysis.
The combination of these results with a sequence and structure analysis of PfCRT, which strongly suggests that the molecule is a carrier, indicates that the transported species is either or both the mono and di-protonated forms of chloroquine.
Using sensitive sequence and structure analysis, combined with contextual information derived from comparative genomics and domain architectures, we identify two novel domain superfamilies in the SOS response system.
Alva, V., Nam, S. Z., Söding, J. & Lupas, A. N. The MPI bioinformatics Toolkit as an integrative platform for advanced protein sequence and structure analysis.
Adekoya, O. A., Helland, R., Willassen, N. P. & Sylte, I. Comparative sequence and structure analysis reveal features of cold adaptation of an enzyme in the thermolysin family.
JK carried out the molecular epidemiological studies, the sequence and structure analysis and drafted the manuscript.
This suggests that the fold code is a network phenomenon along with sequence and structural phenomena, thus providing rationale as to why merely sequence-based or structure-based pattern analysis of proteins may not succeed in decoding fold signatures.
Therefore, genome neighborhood of BLES03-like proteins was analyzed and compared with function inferred from our sequence and structure-based analysis.
The analysis was basically focused on sequence and structure similarities.
The combined analysis of its sequence and structure reveals a structural fold originally associated with periplasmic binding proteins.
MH carried out the sequence alignment, 3D structure analysis, and statistical analysis.
