Changes between Version 10 and Version 11 of SiteVisit

Timestamp:

Aug 26, 2011, 11:03:46 AM (15 years ago)

Author:

meng

Comment:

--

SiteVisit

@@ -15 +15 @@
  * BLAST service
  * Modeller interface
+ * multiple alignment from source other than BLAST if we want to make statements about conservation, perhaps with corresponding tree (domain family seed alignments + trees can be obtained from Pfam)
  * multiple alignment Conservation header (sequence conservation, AL2CO options include entropy, variability, etc.)
  * multiple alignment RMSD header (spatial conservation of associated superimposed structures)
  * render by attribute (could be attribute from MAV header or other such as bfactor or Modeller error profile)
- * UniProt annotations on sequence either from direct UniProt fetch of sequence or using PDB/UniProt Info tool
- ** if useful for system... good for showing relationship of gp120 core constructs in which loops had been replaced with stubs to the full-length sequence (unfortunately PDB SIFTS service has a data problem with 1GC1 but 1GM9 is nearly identical and could be used instead)
+ * Uniprot annotations on sequence either from direct Uniprot fetch of sequence or from using PDB/UniProt Info tool
+ (good for showing relationship of gp120 core constructs in which loops had been replaced with stubs to the full-length sequence... unfortunately PDB SIFTS service has a data problem with 1GC1 but 1GM9 is nearly identical and could be used instead)
 
 === TR&D 2 ===