Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Stoichiometric and structural analyses support the 48:12 model of the human pyruvate dehydrogenase complex core

ABSTRACT: Chemical cross-linking coupled to mass spectrometry using the amine-reactive BS3 reagent was used to study the organization of the human pyruvate dehydrogenase complex core consisting of multiple copies of dihydrolipoamide acetyltransferase (E2) and dihydrolipoamide dehydrogenase-binding protein (E3BP) assembled into a 60-mer complex.

INSTRUMENT(S): Orbitrap Fusion Lumos

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Alexander Leitner

LAB HEAD: Alexander Leitner

PROVIDER: PXD045858 | Pride | 2024-05-15

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	221207_LU02_aleitner_PDH_01.raw	Raw
	221207_LU02_aleitner_PDH_02.raw	Raw
	221207_LU02_aleitner_PDH_03.raw	Raw
	221207_LU02_aleitner_PDH_04.raw	Raw
	221207_LU02_aleitner_PDH_05.raw	Raw

Items per page:

1 - 5 of 10

Similar Datasets

RNxQuest: an extension to the xQuest pipeline enabling analysis of protein-RNA cross-linking/mass spectrometry data

2023-09-06 | PXD039754 | Pride

Structural architecture and function of the human NALCN channelosome

Project description:Chemical cross-linking coupled to mass spectrometry was used to study the subunit organization of the NALCN channelosome consisting of the proteins NALCN, FAM155A, UNC79 and UNC80. Cross-linking data was generated using the reagents disuccinimidyl suberate (DSS), pimelic dihydrazide (PDH), and 4-(4,6-Dimethoxy-1,3,5-triazin-2-yl)-4-methylmorpholinium (DMTMM) chloride, and was analyzed in combination with data from cryo-electron microscopy.

2021-11-23 | PXD027213 | Pride

An inhibitory segment within G-patch activators tunes Prp43-ATPase activity during ribosome assembly

Project description:Chemical cross-linking coupled to mass spectrometry using the amine-reactive DSS reagent was used to study the interactions between the RNA helicase Prp43 and its interactors, Pxr1 and Tma23, in Saccharomyces cerevisiae.

2024-10-02 | PXD047173 | Pride

Tissue Transglutaminase 2 has higher affinity for relaxed than for stretched fibronectin fibers

Project description:Chemical cross-linking coupled to mass spectrometry was used to study the interaction between fibronectin (Fn; full-length or gelatin-binding domain fragment = Fn 45) with tissue transglutaminase 2 in oxidized and non-oxidized form. The complexes were cross-linked with disuccinimidyl suberate (DSS) or a combination of pimelic dihydrazide (PDH) in combination with the zero-length cross-linking reagent, DMTMM.

2023-12-20 | PXD043976 | Pride

Sensitive detection and structural characterisation of UV-induced cross-links in protein-ribonucleic acid complexes using stable isotope labelling and mass spectrometry

Project description:The recently introduced cross-linking of isotope-labelled RNA coupled with mass spectrometry (CLIR-MS) technique enables protein-RNA cross-links to be used as precisely localized distance restraints in de novo structural modelling, but little is known about the structural characteristics of UV-induced cross-links. Here we demonstrate protocol optimizations, and apply the enhanced protocol to a set of model protein-RNA complexes to better characterize the properties of UV-induced protein-RNA cross-links. We use these insights to study a non-canonical protein-RNA interaction between SF3A1 of the U2 snRNP and stem-loop 4 of the U1 snRNP, demonstrating that UV cross-linking and mass spectrometry is a reliable standalone data type for low resolution structural characterizations of protein-RNA interactions.

2023-09-06 | PXD029930 | Pride

Structural requirements for photo-induced RNA-protein cross-linking

Project description:Cross-linking of isotope-labelled RNA coupled with mass spectrometry (CLIR-MS) was used to study the UV cross-linking behavior of in vitro reconstituted FOX1 RRM in complex with its cognate RNA sequence, the Fox binding element (FBE), (U)GCAUGU. The FBE heptanucleotide was subsequently mutated, and the impact on UV cross-linking and affinity investigated. Cross-linking was performed using irradiation under 254 nm light, relying on the inherent reactivity of ribonucleotides.

2022-06-09 | PXD031381 | Pride

The human GID complex engages two independent modules for substrate recruitment

Project description:Chemical cross-linking coupled to mass spectrometry was used to study two different assemblies of the human E3 ubiquitin ligase complex, GID. The 5mer complex consisted of subunits MAEA, RMND5a, TWA1, WDR26, and RanBP9; the 6mer complex consisted of the subunits of the 5mer complex and the additional subunit ARMC8β. Cross-linking experiments were performed with disuccinimidyl suberate (DSS) or pimelic dihydrazide (PDH) in combination with the coupling reagent DMTMM.

2021-08-25 | PXD024822 | Pride

Structural insights into the assembly and polyA signal recognition mechanism of the human CPSF complex

Project description:Structural study of the polyA signal recognition by the human CPSF using X-ray crystallography, cross-linking MS, pull-downs and fluorescence polarisation assays.

2017-12-18 | PXD008122 | Pride

Cryo-EM structure of the full human PRC2 and regulation by AEBP2 and JARID2

Project description:Structural study of the PRC2 complex and its regulators AEPB2 and JARID2 combining cryo-EM, cross-linking, targeted MS and hydrogen/deuterium exchange MS.

2018-01-25 | PXD008605 | Pride

pH dependence of succinimide ester-based protein cross-linking for structural mass spectrometry applications

Project description:The pH dependency of the reaction of the cross-linking reagent, disuccinimidyl suberate (DSS), was studied on a set of eight model proteins.

2021-11-15 | PXD027891 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data