Optimization of the major parameters of MS-Fit in peptide mass fingerprint identify proteins
- VernacularTitle:采用MS-Fit进行肽质量指纹谱鉴定蛋白质时主要参数的优化
- Author:
Yongbo PENG
- Publication Type:Journal Article
- Keywords:
MALADI-TOF-MS;
PMF search;
Protein;
MS-Fit
- From:
Journal of Chongqing Medical University
2007;0(07):-
- CountryChina
- Language:Chinese
-
Abstract:
Objective:To optimize the major parameters of bioinformatics analysis conditions in process of PMF(Peptide Mass Fingerprinting) identify target proteins. Methods:In this process of experiment design and analysis,we made the Bovine Carbonic anhydrase-2 and BSA from 2-DE gel,after proteolysis with porcine trypsin and gathered the peptides,subsequently identified with MALDI-TOF MS and got the peptides mass data. Then,we selected database of Swissprot and MS-Fit search engine,the standard Carbonic anhydrase-2 protein used as model to set up protein search standard conditions. Results:Our study showed that the cysteine was modified by carbamidomethylation more convenient in protein search,at the same time,the better mode of mass tolerance was percentage and 0.1% was suitable tolerance in our search. Then we used BSA mass data to check the accuracy of MS search standard conditions. Conclusions:Results show that the optimized parameters are reliable.
