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151.
Combining protein evolution and secondary structure 总被引:19,自引:9,他引:10
An evolutionary model that combines protein secondary structure and amino
acid replacement is introduced. It allows likelihood analysis of aligned
protein sequences and does not require the underlying secondary (or
tertiary) structures of these sequences to be known. One component of the
model describes the organization of secondary structure along a protein
sequence and another specifies the evolutionary process for each category
of secondary structure. A database of proteins with known secondary
structures is used to estimate model parameters representing these two
components. Phylogeny, the third component of the model, can be estimated
from the data set of interest. As an example, we employ our model to
analyze a set of sucrose synthase sequences. For the evolution of sucrose
synthase, a parametric bootstrap approach indicates that our model is
statistically preferable to one that ignores secondary structure.
相似文献
152.
Marija Cvijović Daniel Dalevi Elizabeth Bilsland Graham JL Kemp Per Sunnerhagen 《BMC bioinformatics》2007,8(1):295
Background
The translational efficiency of an mRNA can be modulated by upstream open reading frames (uORFs) present in certain genes. A uORF can attenuate translation of the main ORF by interfering with translational reinitiation at the main start codon. uORFs also occur by chance in the genome, in which case they do not have a regulatory role. Since the sequence determinants for functional uORFs are not understood, it is difficult to discriminate functional from spurious uORFs by sequence analysis. 相似文献153.
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155.
Effect of botulinum D toxin on neutrophils 总被引:1,自引:0,他引:1
J L Mege M Volpi E L Becker R I Sha'afi 《Biochemical and biophysical research communications》1988,152(2):926-932
Activated botulinum D toxin ADP-ribosylates a 22 kDa molecular weight protein in homogenates obtained by sonication of a suspension of rabbit peritoneal neutrophils. The ADP-ribosylation catalyzed by activated botulinum D toxin is inhibited in homogenates obtained from cells pretreated with the toxin, suggesting that it is able to enter into these cells and be activated by them. The rise in intracellular concentration of free calcium in toxin treated cells stimulated by fMet-Leu-Phe is similar to that found in control cells. The basal concentration of intracellular free calcium is significantly elevated in neutrophils treated with the intact but not with the activated form of the botulinum D toxin. Superoxide generation in control and native toxin treated cells stimulated with fMet-leu-Phe, phorbol 12-myristate 13-acetate or opsonized zymosan is the same. The release of beta-glucosaminidase produced by fMet-Leu-Phe or Concanavalin A in botulinum D toxin treated neutrophils was slightly higher than the corresponding release in control cells. Furthermore, the fMet-Leu-Phe-induced increase in the amount of actin associated with the cytoskeleton is not inhibited by botulinum D toxin. These results suggest that the 22 kDa protein which can be ADP-ribosylated by botulinum D toxin is not involved in these stimulated neutrophil responses. 相似文献
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