Project PXD000864

PRIDE Assigned Tags:
Biological Dataset

Summary

Title

Label-free based proteomic study of Thermoanaerobacter tengcongensis

Description

In order to study the protein responsive network to thermal stress, the proteome analysis of Thermoanaerobacter tengcongensis, a kind of anaerobic thermophilic eubacterium, were performed.

Sample Processing Protocol

The proteins were extracted from the bacteria cultured at 55oC and 75oC, respectively, using lysis buffer containing 8M urea, followed by reductive alkylation with DTT and IAM, and tryptic digestion. The resulted peptides were separated with high-pH RP into 12 fractions, and analyzed using LTQ-Velos-Orbitrap with the acquisition time of 90min under CID fragmentation mode time of 90min under CID fragmentation mode.

Data Processing Protocol

The acquired raw MS/MS data from each fraction were converted to MGF files using Trans Proteomic Pipeline (TPP v4.6.3) and searched by MASCOT against the database with the proteins of T. tengcongensis downloaded from NCBI. The searching parameters were set as following: tolerance of one missed cleavage of trypsin, Carbamidomethyl (C) as fixed modification and Oxidation (M) as variable modification, the precursor mass tolerance 10 ppm and the product ion mass tolerance 0.6 Da, auto decoy search.

Contact

Bo Wen, Proteomics
Bo Wen, Proteomics Research Group, Department of Science & Technology, BGI-shenzhen ( lab head )

Submission Date

28/03/2014

Publication Date

30/03/2014

Publication

Publication pending

Assay

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# Accession Title Proteins Peptides Unique Peptides Spectra Identified Spectra View in Reactome
1 35892 55 replicate 1 fraction 1 909 4274 1664 16228 4112
2 35891 55 replicate 2 fraction 1 940 4382 1695 16071 4153
3 35890 55 replicate 3 fraction 1 927 4316 1658 15848 4110
4 35852 55 replicate 1 fraction 2 916 4727 1702 16671 4501
5 35851 55 replicate 2 fraction 2 901 4538 1664 16343 4331
6 35850 55 replicate 3 fraction 2 902 4442 1682 16045 4275
7 35856 55 replicate 1 fraction 3 975 4534 1741 16088 4262
8 35855 55 replicate 2 fraction 3 946 4484 1698 15911 4227
9 35854 55 replicate 3 fraction 3 937 4452 1673 15930 4259
10 35853 55 replicate 1 fraction 4 907 4192 1651 15391 4021

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