PXD037081

PXD037081 is an original dataset announced via ProteomeXchange.

Title	Accurate identification of proteogenomic characterization in Mycolicibacterium smegmatis MC2155 by 14N and 15N double-labeling mass spectra
Description	To achieve deep coverage of M. smegmatis proteome, 240 μg proteins were reduced with 5 mM of dithiothreitol (DTT), alkylated with 20 mM of iodoacetamide (IAA). The alkylated proteins were separated by a 10% SDS-PAGE for 8 cm, and stained with Coomassie Blue G250. Gel lane was excised into 13 fractions based on the molecular wight (MW) and protein abundance, and digested with Ac-Trypsin (Wu et al., 2016) (12.5 ng/μL) at 37 °C for 12-24 h. The extracted peptides were desalted with a homemade C18 StageTip (Zhai et al., 2013), dried and dissolved in loading buffer (1% acetonitrile, ACN and 1% formic acid, FA) for MS analysis.The dissolved peptides (500 ng) were analyzed as described previously. Briefly, the liquid chromatography tandem mass spectrometry (LC-MS/MS) consisted of an EASY-nLC 1200 system (Thermo Fisher Scientific, San Jose, CA, United States) equipped with a self-packed capillary column (75 μm i.d. × 15 cm, 3 μm C18 reversed-phase fused silica) coupled to an Orbitrap Fusion Lumos (Thermo Fisher Scientific). For full MS scans, the automatic gain control (AGC) was 5.0 × 105, the scan ranged from 300 to 1,400 m/z at a resolution of 1.2 × 105 and a maximum injection time (MIT) of 50 ms. For the MS2 scan, only spectra with a charge state of 2-6 were selected for fragmentation by higher energy collision-induced dissociation (HCD) with a normalized collision energy of 32%, AGC of 1 × 105, and MIT of 35 ms. The dynamic exclusion was set to 30 s.
HostingRepository	iProX
AnnounceDate	2022-09-29
AnnouncementXML	Submission_2023-01-31_20:03:35.487.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Songhao Jiang
SpeciesList	scientific name: Mycolicibacterium smegmatis MC2 155; NCBI TaxID: 246196;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2022-09-29 21:06:22	ID requested
⏵ 1	2023-01-31 20:03:36	announced

Jiang S, Shi J, Li Y, Zhang Z, Chang L, Wang G, Wu W, Yu L, Dai E, Zhang L, Lyu Z, Xu P, Zhang Y, 155 by proteogenomic analysis. Front Microbiol, 13():1015140(2022) [pubmed]

submitter keyword: Mycolicibacterium smegmatis MC2155

Yao Zhang
contact affiliation	Beijing Proteome Research Center
contact email	zhangyaowsw@163.com
lab head
Songhao Jiang
contact affiliation	Beijing Proteome Research Center
contact email	947508327@qq.com
dataset submitter

iProX dataset URI