JCSG
DATA ACQUISITION PRIORITIZATION SYSTEM .. Version 2
SEARCHES
 Enter parameter and hit return
JCSG Website
Target analysis
(PSCA system)
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REPORTS error-file:tidyout.log
 Enter TM Code and hit return

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DEVELOPMENT
Methodology
Flowchart

2/11/2002 - Reports replace "Support information" in prioritization displays. "Support information..." search removed.

1/25/2002 - Beta version mounted in the production site.

01/16/2002 - Target reports activated.

12/19/2001 - Change in scoring function. PDB coverage used as weight for total adjustment score.


JCSG-BLAST Search

The goal of this system is to provide an automated method to prioritize crystallized proteins for data acquisition at the Joint Center for Structural Genomics Structure Determination Core. Prioritization is based on criteria that reflect the main goals of JCSG: proteins with potential for identification of new folds, and multidomain proteins implicated in cell signalling.

PRIORITIZATION PROCESS: The process of prioritization is two-tiered. First, crystals are classified according to PDB coverage, Pfam coverage, presence of mutiple domains based on Pfam, and sequence length. After the initial sorting process, crystal priorities are adjusted based on a number of secondary factors. The factors selected are:

a) Presence of coiled-coil segments
b) Presence of transmembrane helices
c) Presence of prokaryotic lipoprotein lipid-binding sites
d) Archeal proteins present in the Thermotoga genome through horizontal gene transfer
e) Absence of functional assignment (Hypothetical proteins)
f) Number of paralogues.


CRYSTAL PRIORITIZATION Help



PRIORITIZATION OF THE THERMOTOGA PROTEOME Help





Send suggestions and comments to: jcanaves@sdsc.edu

Last modified on Sunday, February 24, 2002 0:20 AM by Jaume M. Canaves