The JCSG MR pipeline: optimized alignments, multiple models and parallel searches.

ABSTRACT: The success rate of molecular replacement (MR) falls considerably when search models share less than 35% sequence identity with their templates, but can be improved significantly by using fold-recognition methods combined with exhaustive MR searches. Models based on alignments calculated with fold-recognition algorithms are more accurate than models based on conventional alignment methods such as FASTA or BLAST, which are still widely used for MR. In addition, by designing MR pipelines that integrate phasing and automated refinement and allow parallel processing of such calculations, one can effectively increase the success rate of MR. Here, updated results from the JCSG MR pipeline are presented, which to date has solved 33 MR structures with less than 35% sequence identity to the closest

SUBMITTER: Schwarzenbacher R 

PROVIDER: S-EPMC2394805 | biostudies-literature | 2008 Jan

REPOSITORIES: biostudies-literature