ConSurf Logo The ConSurf Server Server for the Identification of
Functional Regions in Proteins  Table of contents  1.
Introduction. 1  2.Methodology. 1  3. Advanced Options and
Details. 3  a. PDB 3D structure. 3  b. Searching for homologous
sequences. 3  c. Generating the phylogenetic tree. 5  d.
Calculating the amino acid conservation scores. 5  e. Analyzing
nucleic acid sequences. 6  f. Confidence interval of the
inferred conservation scores. 6  g. Model of substitution for
proteins. 7  h. Conservation Scores. 8  i. Coloring Scheme. 8
J. Dealing with unreliable positions: 8  4. Output 10  5.
Example. 11  6. References. 13  1.   Introduction  The ConSurf
server [1] is a bioinformatics tool for estimating the
evolutionary conservation of amino/nucleic acid positions in a
protein/DNA/RNA molecule based on the phylogenetic relations
between homologous sequences. The degree to which an amino (or
nucleic) acid position is evolutionarily conserved is strongly
dependent on its structural and functional importance