Exam 2 for Bioinformatics for Biologists

From the first iteration of PSI-BLAST results comparing the human alpha-globin to the non-redundant protein sequences (nr) database, what was the E-value of the hemoglobin subunit alpha protein found in Rhinopithecus roxellana?

From the first iteration of PSI-BLAST results comparing the human alpha-globin protein to the non-redundant protein sequences (nr) database, what was the percent identity of the hemoglobin subunit alpha protein found in Rhinopithecus roxellana?

From the first iteration of PSI-BLAST results comparing the human alpha-globin protein to the non-redundant protein sequences (nr) database, are the results the same or different from those obtained from BLASTP results?

From the second iteration of PSI-BLAST results comparing the human alpha-globin protein to the non-redundant protein sequences (nr) database, what was the percent identity of the hemoglobin subunit alpha protein found in Camelus dromedarius?

From the PROMALS3D results, how many representative sequences are there?

From the PROMALS3D results, which representative sequence has sequences with black names directly under it indicating they are part of the same pre-aligned group?

From the PROMALS3D results above, how many conserved alpha-helix secondary structures were predicted?

From the PROMALS3D results above, how many conserved beta-strand secondary structures were predicted?

Based on the phylogenetic tree, which species is closest species to human? Provide your answer as a NCBI locus tag.

Based on the phylogenetic tree, which species is the second closest species to human? Provide your answer as a NCBI locus tag.

Based on the phylogenetic tree, which 2 species are the furthest species from human? Provide your answer as NCBI locus tags in alphabetical order. (16 points)

From the PROMALS3D results above, which sequence is the representative sequence?
From the PROMALS3D results above, how many conserved alpha-helix secondary structures were predicted?
From the PROMALS3D results above, how many conserved beta-strand secondary structures were predicted?