Project PXD000536

PRIDE Assigned Tags:
Biomedical Dataset
Dataset Belongs to:
PRIME-XS Project
Download Project Files
Project Protein Table
Project Peptide Table
Visualize in PRIDE Inspector
Follow the next three steps to open your selected project or assay in PRIDE Inspector:

  • 1.

    Download, uncompress and open PRIDE Inspector
  • 2.

    Click in the magnifier on the left top corner, paste the project or assay that you would like to open in the search box, and hit search
  • 3.

    Click in the corresponding "Download" button to download the files and visualize them

Summary

Title

HCMV-NEC analysis

Description

Herpesviral capsids are assembled in the host cell nucleus before being translocated to the cytoplasm where they undergo further maturation. The crossing of nuclear envelope represents a major event that requires formation of the nuclear egress complex (NEC). We investigated the protein composition of specific HCMV-NEC complex in infected infected human primary fibroblasts.

Sample Processing Protocol

Immunoprecipitation experiments of the NEC were realized and the protein composition determined using proteomic analyses. Proteins were stacked in the top of a SDS-PAGE gel before in-gel digestion. Resulting peptides were analysed by online nanoLC-MS/MS (Ultimate 3000, Dionex and LTQ-Orbitrap Velos pro, Thermo Fischer Scientific).

Data Processing Protocol

Peptides and proteins were identified using Mascot (v. 2.4) and filtered using IRMa (v. 1.31.1): conservation of rank 1 peptides, peptide identification FDR < 1% (as calculated on peptide scores by employing the reverse database strategy), and minimum of 1 specific peptide per identified protein group. Filtered results were uploaded into a relational mass spectrometry identification database (MSIdb) before compilation, grouping and comparison of the protein groups from the different samples using an homemade tool (hEIDI v. 1.14.3).

Contact

Yohann Couté, EDyP
Christophe Bruley, iRTSV/BGE/EDyP INSERM - CEA - Grenoble-Alpes University ( lab head )

Submission Date

28/03/2014

Publication Date

30/06/2014

Publication

    Milbradt J, Kraut A, Hutterer C, Sonntag E, Schmeiser C, Ferro M, Wagner S, Lenac T, Claus C, Pinkert S, Hamilton ST, Rawlinson WD, Sticht H, Coute Y, Marschall M. Proteomic analysis of the multimeric nuclear egress complex of human cytomegalovirus. Mol Cell Proteomics. 2014 Jun 26. pii: mcp.M113.035782 PubMed: 24969177

Assay

Showing 1 - 3 of 3 results
# Accession Title Proteins Peptides Unique Peptides Spectra Identified Spectra View in Reactome
1 35845 Ctrl and test samples 1027 9377 5437 6974 6974
2 35844 Ctrl and test samples 1407 14813 7898 10707 10707
3 35846 Ctrl and test samples 1028 6964 4877 5849 5849