PXD017566

PXD017566 is an original dataset announced via ProteomeXchange.

Title	ARIH2 is a Vif-dependent regulator of CUL5-mediated APOBEC3G degradation in HIV infection: SRM-CBFB
Description	SRM assays were generated for selected interactors of CBFB. SRM assay generation was performed using Skyline. For all targeted proteins, proteotypic peptides and optimal transitions for identification and quantification were selected based on the Skyline spectral library generated from the shotgun MS experiments (MSV000084855). For each protein, 2-5 peptides were selected based on intensity, peptide length as well as chromatographic performance. For each peptide the 4 best SRM transitions were selected based on intensity and peak shape. Digested peptide mixtures were analyzed by LC-SRM on a Thermo Scientific TSQ Quantiva MS system equipped with a Proxeon. Easy nLC 1200 ultra high-pressure liquid chromatography and autosampler system. Samples were injected onto a C18 column (25 cm x 75 mm I.D. packed with ReproSil Pur C18 AQ 1.9 mm particles) in 0.1% formic acid and then separated with an 80 min gradient from 5% to 40% Buffer B (90% ACN/10% water/0.1% formic acid) at a flow rate of 300 nL/min. SRM acquisition was per- formed operating Q1 and Q3 at 0.7 unit mass resolution. For each peptide the best 4 transitions were monitored in a scheduled fashion with a retention time window of 4 min and a cycle time fixed to 2 seconds. Argon was used as the collision gas at a nominal pressure of 1.5 mTorr. Collision energies were calculated by, CE = 0.0348 * (m/z) + 0.4551 and CE = 0.0271 * (m/z) + 1.5910 (CE, collision energy and m/z, mass to charge ratio) for doubly and triply charged precursor ions, respectively. RF lens voltages were calculated by, RF = 0.1088 * (m/z) + 21.029 and RF = 0.1157 * (m/z) + 0.1157 (RF, RF lens voltage and m/z, mass to charge ratio) for doubly and triply charged precursor ions, respectively. The resulting data was analyzed with Skyline for identification and quantification of peptides. MSstats was used for statistical analysis.
HostingRepository	MassIVE
AnnounceDate	2020-02-17
AnnouncementXML	Submission_2020-02-17_17:39:12.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Meena Choi
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; scientific name: Human immunodeficiency virus 1; NCBI TaxID: 11676;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	TSQ Quantiva

Revision	Datetime	Status	ChangeLog Entry
0	2020-02-17 17:31:28	ID requested
⏵ 1	2020-02-17 17:39:14	announced

H, ü, ttenhain R, Xu J, Burton LA, Gordon DE, Hultquist JF, Johnson JR, Satkamp L, Hiatt J, Rhee DY, Baek K, Crosby DC, Frankel AD, Marson A, Harper JW, Alpi AF, Schulman BA, Gross JD, Krogan NJ, ARIH2 Is a Vif-Dependent Regulator of CUL5-Mediated APOBEC3G Degradation in HIV Infection. Cell Host Microbe, 26(1):86-99.e7(2019) [pubmed]

submitter keyword: Host-virus interactions, ARIH2, HIV, vif, CUL5, AP-MS, APOBEC3G

Nevan J. Krogan
contact affiliation	University of California, San Francisco
contact email	nevan.krogan@ucsf.edu
lab head
Meena Choi
contact affiliation	Northeastern University
contact email	mnchoi67@gmail.com
dataset submitter

MassIVE dataset URI

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive.ucsd.edu/MSV000084964/