Optimization of the major parameters of MS-Fit in peptide mass fingerprint identify proteins

PENG Yong-bo; et al

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Optimization of the major parameters of MS-Fit in peptide mass fingerprint identify proteins

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- Optimization of the major parameters of MS-Fit in peptide mass fingerprint identify proteins
- Journal of Chongqing Medical University Issue 7, Pages: 769-772(2008)
- 作者机构：
  
  1. 重庆医科大学药学院药物分析教研室
  2. 重庆医科大学生物化学与分子生物学教研室
  3. 重庆医科大学药学院药物分析教研室重庆医科大学生物化学与分子生物学教研室
- 作者简介：
- 基金信息：
- DOI：
  CLC： Q51
- Published：2008，
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[1]彭咏波,母昭德,马永平,夏永鹏,邱宗荫.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[J].重庆医科大学学报,2008(07):769-772+787.

PENG Yong-bo, et al. Optimization of the major parameters of MS-Fit in peptide mass fingerprint identify proteins. [J]. Journal of Chongqing Medical University (7):769-772(2008)
[1]彭咏波,母昭德,马永平,夏永鹏,邱宗荫.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[J].重庆医科大学学报,2008(07):769-772+787. DOI：

PENG Yong-bo, et al. Optimization of the major parameters of MS-Fit in peptide mass fingerprint identify proteins. [J]. Journal of Chongqing Medical University (7):769-772(2008) DOI：

摘要

目的:为了优化肽质量指纹谱（Peptide mass fingerprinting

PMF）鉴定蛋白质时采用MS-Fit引擎搜索的分析参数。方法:将2-DE分离后的Carbonic anhydrase-2和BSA进行胶内充分酶解

肽段经过MALDI-TOF-MS分析得到PMF数据。选择Swissprot数据库

以Carbonic anhydrase2为模型优化搜索参数。结果:主要搜索参数的最佳设置为:半胱氨酸修饰为Carbamidomethylation

肽质量容错模型为百分数

在研究中0.1%容错数为最好。结论:本文通过标准蛋白对搜索主要参数的优化

建立了方便、可靠的MS-Fit搜索参数模式。

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.

关键词

MALDI-TOF-MSPMF搜索蛋白质MS-Fit

Keywords

MALADI-TOF-MSPMF searchproteinMS-Fit

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