ConSurf: using evolutionary data to raise testable hypotheses about protein function
G Celniker, G Nimrod, H Ashkenazy… - Israel Journal of …, 2013 - Wiley Online Library
Many mutations disappear from the population because they impair protein function and/or
stability. Thus, amino acid positions that are essential for proper function evolve more slowly …
stability. Thus, amino acid positions that are essential for proper function evolve more slowly …
Horizontal gene transfer in prokaryotes: quantification and classification
EV Koonin, KS Makarova… - Annual Reviews in …, 2001 - annualreviews.org
▪ Abstract Comparative analysis of bacterial, archaeal, and eukaryotic genomes indicates
that a significant fraction of the genes in the prokaryotic genomes have been subject to …
that a significant fraction of the genes in the prokaryotic genomes have been subject to …
Ancient gene capture and recent gene loss shape the evolution of orthopoxvirus-host interaction genes
The survival of viruses depends on their ability to resist host defenses and, of all animal virus
families, the poxviruses have the most antidefense genes. Orthopoxviruses (ORPV), a genus …
families, the poxviruses have the most antidefense genes. Orthopoxviruses (ORPV), a genus …
[图书][B] Biological sequence analysis: probabilistic models of proteins and nucleic acids
Probabilistic models are becoming increasingly important in analysing the huge amount of
data being produced by large-scale DNA-sequencing efforts such as the Human Genome …
data being produced by large-scale DNA-sequencing efforts such as the Human Genome …
[HTML][HTML] A putative RNA-interference-based immune system in prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with …
KS Makarova, NV Grishin, SA Shabalina, YI Wolf… - Biology direct, 2006 - Springer
Background All archaeal and many bacterial genomes contain Clustered Regularly
Interspaced Short Palindrome Repeats (CRISPR) and variable arrays of the CRISPR …
Interspaced Short Palindrome Repeats (CRISPR) and variable arrays of the CRISPR …
Endosymbiotic origin and differential loss of eukaryotic genes
Chloroplasts arose from cyanobacteria, mitochondria arose from proteobacteria. Both
organelles have conserved their prokaryotic biochemistry, but their genomes are reduced …
organelles have conserved their prokaryotic biochemistry, but their genomes are reduced …
Bacterial rhodopsin: evidence for a new type of phototrophy in the sea
Extremely halophilic archaea contain retinal-binding integral membrane proteins called
bacteriorhodopsins that function as light-driven proton pumps. So far, bacteriorhodopsins …
bacteriorhodopsins that function as light-driven proton pumps. So far, bacteriorhodopsins …
ConSurf 2005: the projection of evolutionary conservation scores of residues on protein structures
Key amino acid positions that are important for maintaining the 3D structure of a protein
and/or its function (s), eg catalytic activity, binding to ligand, DNA or other proteins, are often …
and/or its function (s), eg catalytic activity, binding to ligand, DNA or other proteins, are often …
[HTML][HTML] A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes
Background Sequencing the genomes of multiple, taxonomically diverse eukaryotes
enables in-depth comparative-genomic analysis which is expected to help in reconstructing …
enables in-depth comparative-genomic analysis which is expected to help in reconstructing …
Genome Sequence of an Obligate Intracellular Pathogen of Humans: Chlamydia trachomatis
RS Stephens, S Kalman, C Lammel, J Fan, R Marathe… - Science, 1998 - science.org
Analysis of the 1,042,519–base pair Chlamydia trachomatis genome revealed unexpected
features related to the complex biology of chlamydiae. Although chlamydiae lack many …
features related to the complex biology of chlamydiae. Although chlamydiae lack many …