Molecular & Cellular Proteomics
ResearchInstant Integrated Ultradeep Quantitative-structural Membrane Proteomics Discovered Post-translational Modification Signatures for Human Cys-loop Receptor Subunit Bias*
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Author Contributions: X.Z. conceived and designed study, performed experiments, analyzed data and wrote paper.
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This work was supported in part by the National Institute of General Medical Sciences (GM 58448, K.W.M.) and the Department of Anesthesia, Critical Care and Pain Medicine, Massachusetts General Hospital. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health.
This article contains supplemental material.
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The abbreviations used are:
- TM
transmembrane
- PTM
post-translational modification
- FDD
flow/detergent-facilitated protease and de-PTM digestions for deep sequencing
- DDM
n-dodecyl-β-D-maltopyranoside
- CHS
cholesteryl hemisuccinate
- TCEP
Tris-2-carboxyethylphosphine
- HDX
H/D exchange
- TMT
tandem mass tag
- DLT
DDM-low-TCEP digestion for HDX
- TMD
TM domain
- ICD
intracellular domain
- ICL
intracellular loop
- ECD
extracellular domain
- C-C
disulfide-bonded Cys-loop
- h
human
- LGIC
ligand-gated ion channel
- GPCR
G protein-coupled receptor
- GABAAR
gamma-aminobutyric acid type A receptor
- β2AR
beta-2 adrenergic receptor
- nAChR
nicotinic acetylcholine receptor
- AChBP
acetylcholine-binding protein
- GlyR
glycine receptor
- 5HT3R
serotonin type 3 receptor
- ER
endoplasmic reticulum
- HEK293
human embryonic kidney cell line 293
- MWCO
molecular weight cutoff
- dial-filtration
dialysis-filtration
- cmc
critical micelle concentration
- RP
reversed-phase
- HCD
higher energy collisional dissociation
- ETD
electron-transfer dissociation
- H-L
high-low, high resolution MS-low resolution MS/MS scans
- H-H
high-high, high resolution MS and MS/MS scans
- H
high-abundance
- L
low-abundance
- PSM
peptide spectrum match
- FDR
false discovery rate
- PD
Proteome Discoverer
- Mox
Methionine oxidation
- Cb
carbamidomethylation
- N-glyco
N-glycosylation
- Me
methylation
- Ac
acetylation
- Fm
formylation
- GlcNAc
N-acetylglucosamine
- Man
mannose
- FA
formic acid
- Cl-DMEA
(2-chloro)-N,N-dimethylethylamine
- BrE-TMAB
(2-bromoethyl)-N,N,N-trimethylammonium bromide.