Summary of Study ST001717

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR001101. The data can be accessed directly via it's Project DOI: 10.21228/M8CT3Q This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST001717
Study TitlePhospholipid transfer function of PTPIP51 at mitochondria-associated ER membranes
Study SummaryIn eukaryotic cells, mitochondria are closely tethered to the endoplasmic reticulum (ER) at sites called mitochondria-associated ER membranes (MAMs). Ca2+ ion and phospholipid transfer occurs at MAMs to support diverse cellular functions. Unlike those in yeast, the protein complexes involved in phospholipid transfer at MAMs in humans have not been identified. Here, we determined the crystal structure of the tetratricopeptide repeat domain of PTPIP51 (PTPIP51_TPR), a mitochondrial protein that interacts with the ER-anchored VAPB protein at MAMs. The structure of PTPIP51_TPR showed an archetypal TPR fold, and an electron density corresponding to an unidentified lipid-like molecule probably derived from the protein expression host was found in the structure. We revealed functions of PTPIP51 in phospholipid binding/transfer, particularly of phosphatidic acid, in vitro. Depletion of PTPIP51 in cells reduced the mitochondrial cardiolipin level. Additionally, we confirmed that the PTPIP51–VAPB interaction is mediated by the FFAT-like motif of PTPIP51 and the MSP domain of VAPB. Our findings suggest that PTPIP51 is a phospholipid transfer protein with a MAM-tethering function similar to the ERMES complex in yeast.
Institute
Korea Basic Science Institute
DepartmentWestern Seoul Center
LaboratoryIntegrated Metabolomics Research Group
Last NameLee
First NameJueun
Address150, Bugahyeon-ro, Seodaemun-gu, Seoul, Republic of Korea (Zip code: 03759)
Emaillje3080@kbsi.re.kr
Phone+82-2-6908-6256
Submit Date2021-03-04
Raw Data AvailableYes
Raw Data File Type(s)mzML
Analysis Type DetailLC-MS
Release Date2021-03-16
Release Version1
Jueun Lee Jueun Lee
https://dx.doi.org/10.21228/M8CT3Q
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Combined analysis:

Analysis ID AN002797 AN002798
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Waters Acquity I-Class Waters Acquity I-Class
Column Waters Acquity CSH C18 (100 x 2.1mm,1.7um) Waters Acquity CSH C18 (100 x 2.1mm,1.7um)
MS Type ESI ESI
MS instrument type QTOF QTOF
MS instrument name ABI Sciex 5600 TripleTOF ABI Sciex 5600 TripleTOF
Ion Mode POSITIVE NEGATIVE
Units Peak area Peak area

MS:

MS ID:MS002592
Analysis ID:AN002797
Instrument Name:ABI Sciex 5600 TripleTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:m/z range of 80-1500 The following parameter settings were used: ion spray voltage, 5500 V (positive mode) and 4500 V (negative mode); source temperature, 500°C; nebulizer gas pressure, 50 psi; drying gas pressure, 60 psi; and curtain gas pressure, 30 psi. An atmospheric pressure chemical ionization calibration solvent was used to maintain mass accuracy with an automated calibrant delivery system (Sciex). Information-dependent acquisition (IDA) was used to acquire MS/MS spectra for ions. All samples were pooled in equal amounts to generate quality control (QC) samples, which were injected after every 4 samples to calculate the coefficient of variation (CV) and assess analytical reproducibility.
Ion Mode:POSITIVE
  
MS ID:MS002593
Analysis ID:AN002798
Instrument Name:ABI Sciex 5600 TripleTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:m/z range of 80-1500 The following parameter settings were used: ion spray voltage, 5500 V (positive mode) and 4500 V (negative mode); source temperature, 500°C; nebulizer gas pressure, 50 psi; drying gas pressure, 60 psi; and curtain gas pressure, 30 psi. An atmospheric pressure chemical ionization calibration solvent was used to maintain mass accuracy with an automated calibrant delivery system (Sciex). Information-dependent acquisition (IDA) was used to acquire MS/MS spectra for ions. All samples were pooled in equal amounts to generate quality control (QC) samples, which were injected after every 4 samples to calculate the coefficient of variation (CV) and assess analytical reproducibility.
Ion Mode:NEGATIVE
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