RGD Reference Report - Relative and absolute quantification of postsynaptic density proteome isolated from rat forebrain and cerebellum. - Rat Genome Database

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Relative and absolute quantification of postsynaptic density proteome isolated from rat forebrain and cerebellum.

Authors: Cheng, Dongmei  Hoogenraad, Casper C  Rush, John  Ramm, Elizabeth  Schlager, Max A  Duong, Duc M  Xu, Ping  Wijayawardana, Sameera R  Hanfelt, John  Nakagawa, Terunaga  Sheng, Morgan  Peng, Junmin 
Citation: Cheng D, etal., Mol Cell Proteomics. 2006 Jun;5(6):1158-70. doi: 10.1074/mcp.D500009-MCP200. Epub 2006 Feb 28.
RGD ID: 13702274
Pubmed: PMID:16507876   (View Abstract at PubMed)
DOI: DOI:10.1074/mcp.D500009-MCP200   (Journal Full-text)

The postsynaptic density (PSD) of central excitatory synapses is essential for postsynaptic signaling, and its components are heterogeneous among different neuronal subtypes and brain structures. Here we report large scale relative and absolute quantification of proteins in PSDs purified from adult rat forebrain and cerebellum. PSD protein profiles were determined using the cleavable ICAT strategy and LC-MS/MS. A total of 296 proteins were identified and quantified with 43 proteins exhibiting statistically significant abundance change between forebrain and cerebellum, indicating marked molecular heterogeneity of PSDs between different brain regions. Moreover we utilized absolute quantification strategy, in which synthetic isotope-labeled peptides were used as internal standards, to measure the molar abundance of 32 key PSD proteins in forebrain and cerebellum. These data confirm the abundance of calcium/calmodulin-dependent protein kinase II and PSD-95 and reveal unexpected stoichiometric ratios between glutamate receptors, scaffold proteins, and signaling molecules in the PSD. Our data also demonstrate that the absolute quantification method is well suited for targeted quantitative proteomic analysis. Overall this study delineates a crucial molecular difference between forebrain and cerebellar PSDs and provides a quantitative framework for measuring the molecular stoichiometry of the PSD.



Gene Ontology Annotations    Click to see Annotation Detail View

Cellular Component

  
Object SymbolSpeciesTermQualifierEvidenceWithNotesSourceOriginal Reference(s)
Pcbp2Ratpostsynaptic density is_active_inEXP PMID:16507876SynGO 
Pcbp2Ratpostsynaptic density is_active_inIDA PMID:16507876SynGO 
Rpl10aRatpostsynaptic density is_active_inEXP PMID:16507876SynGO 
Rpl10aRatpostsynaptic density is_active_inIDA PMID:16507876SynGO 
Rpl18aRatpostsynaptic density is_active_inEXP PMID:16507876SynGO 
Rpl18aRatpostsynaptic density is_active_inIDA PMID:16507876SynGO 
Rpl23Ratpostsynaptic density is_active_inEXP PMID:16507876SynGO 
Rpl23Ratpostsynaptic density is_active_inIDA PMID:16507876SynGO 
Rpl4Ratpostsynaptic density is_active_inEXP PMID:16507876SynGO 
Rpl4Ratpostsynaptic density is_active_inIDA PMID:16507876SynGO 
NcanRatsynapse is_active_inEXP PMID:16507876SynGO 
NcanRatsynapse is_active_inIDA PMID:16507876SynGO 
Rpl18aRatsynapse is_active_inIDA PMID:16507876SynGO 
Rpl18aRatsynapse is_active_inEXP PMID:16507876SynGO 
SparcRatsynapse is_active_inEXP PMID:16507876SynGO 
SparcRatsynapse is_active_inIDA PMID:16507876SynGO 
VcanRatsynapse is_active_inEXP PMID:16507876SynGO 
VcanRatsynapse is_active_inIDA PMID:16507876SynGO 

Objects Annotated

Genes (Rattus norvegicus)
Ncan  (neurocan)
Pcbp2  (poly(rC) binding protein 2)
Rpl10a  (ribosomal protein L10A)
Rpl18a  (ribosomal protein L18A)
Rpl23  (ribosomal protein L23)
Rpl4  (ribosomal protein L4)
Sparc  (secreted protein acidic and cysteine rich)
Vcan  (versican)


Additional Information