PXD037080

PXD037080 is an original dataset announced via ProteomeXchange.

Title	Ac-LysargiNase Helps Genome Reannotation of Mycolicibacterium smegmatis MC2 155
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 and Ac-LysargiNase (Zhang et al., 2019) (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_2022-09-29_22:00:54.237.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yao Zhang
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 21:06:05	ID requested
⏵ 1	2022-09-29 22:00:55	announced

Zhu H, Jiang S, Zhou W, Chi H, Sun J, Shi J, Zhang Z, Chang L, Yu L, Zhang L, Lyu Z, Xu P, Zhang Y, 155. J Proteomics, 264():104622(2022) [pubmed]

submitter keyword: Mycolicibacterium smegmatis MC2 155, proteogenomic, Ac-LysargiNase

Ping Xu
contact affiliation	Beijing Proteome Research Center
contact email	xuping_bprc@126.com
lab head
Yao Zhang
contact affiliation	Beijing Proteome Research Center
contact email	zhangyaowsw@163.com
dataset submitter

iProX dataset URI