AMBER Archive (2007)

Subject: AMBER: ab initio modeling using Amber

From: snoze pa (snoze.pa_at_gmail.com)
Date: Thu Feb 01 2007 - 20:59:17 CST

Dear Amber Users,
 Is it possible to use amber for ab initio calculations. I want to model a
small protein for which no PDB template available
so I want to use ab initio technique. If yes, is there any tutorials
available in AMBER. There is a paper published in Proteins,
2003 "Ab initio construction of polypeptide fragments: Accuracy of loop
decoy discrimination by an all-atom statistical
potential and the AMBER force field with the Generalized Born solvation
model by *de Bakker
PI*<http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Search&itool=pubmed_AbstractPlus&term=%22de+Bakker+PI%22%5BAuthor%5D>
,*DePristo MA*<http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Search&itool=pubmed_AbstractPlus&term=%22DePristo+MA%22%5BAuthor%5D>
,*Burke DF*<http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Search&itool=pubmed_AbstractPlus&term=%22Burke+DF%22%5BAuthor%5D>
,
*Blundell TL*<http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Search&itool=pubmed_AbstractPlus&term=%22Blundell+TL%22%5BAuthor%5D>
.Proteins. <javascript:AL_get(this, 'jour', 'Proteins.');> 2003 Apr
1;51(1):21-40.
thank you
snoze

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