Cross-linking mass spectrometry for investigating protein conformations and protein–protein interactions─ a method for all seasons

L Piersimoni, PL Kastritis, C Arlt, A Sinz - Chemical Reviews, 2021 - ACS Publications
Mass spectrometry (MS) has become one of the key technologies of structural biology. In this
review, the contributions of chemical cross-linking combined with mass spectrometry (XL …

Cross-linking mass spectrometry: methods and applications in structural, molecular and systems biology

FJ O'Reilly, J Rappsilber - Nature structural & molecular biology, 2018 - nature.com
Over the past decade, cross-linking mass spectrometry (CLMS) has developed into a robust
and flexible tool that provides medium-resolution structural information. CLMS data provide …

[HTML][HTML] ATG9A and ATG2A form a heteromeric complex essential for autophagosome formation

AR van Vliet, GN Chiduza, SL Maslen, VE Pye, D Joshi… - Molecular cell, 2022 - cell.com
Summary ATG9A and ATG2A are essential core members of the autophagy machinery.
ATG9A is a lipid scramblase that allows equilibration of lipids across a membrane bilayer …

The SMC-family Wadjet complex protects bacteria from plasmid transformation by recognition and cleavage of closed-circular DNA

A Deep, Y Gu, YQ Gao, KM Ego, MA Herzik, H Zhou… - Molecular Cell, 2022 - cell.com
Self versus non-self discrimination is a key element of innate and adaptive immunity across
life. In bacteria, CRISPR-Cas and restriction-modification systems recognize non-self nucleic …

Structural basis of Integrator-mediated transcription regulation

I Fianu, Y Chen, C Dienemann, O Dybkov, A Linden… - Science, 2021 - science.org
Integrator and protein phosphatase 2A (PP2A) form a complex that dephosphorylates
paused RNA polymerase II (Pol II), cleaves the nascent RNA, and terminates transcription …

Structure of activated transcription complex Pol II–DSIF–PAF–SPT6

SM Vos, L Farnung, M Boehning, C Wigge, A Linden… - Nature, 2018 - nature.com
Gene regulation involves activation of RNA polymerase II (Pol II) that is paused and bound
by the protein complexes DRB sensitivity-inducing factor (DSIF) and negative elongation …

Structure of paused transcription complex Pol II–DSIF–NELF

SM Vos, L Farnung, H Urlaub, P Cramer - Nature, 2018 - nature.com
Metazoan gene regulation often involves the pausing of RNA polymerase II (Pol II) in the
promoter-proximal region. Paused Pol II is stabilized by the protein complexes DRB …

In-cell architecture of an actively transcribing-translating expressome

FJ O'Reilly, L Xue, A Graziadei, L Sinn, S Lenz… - Science, 2020 - science.org
Structural biology studies performed inside cells can capture molecular machines in action
within their native context. In this work, we developed an integrative in-cell structural …

Structural basis of human transcription–DNA repair coupling

G Kokic, FR Wagner, A Chernev, H Urlaub, P Cramer - Nature, 2021 - nature.com
Transcription-coupled DNA repair removes bulky DNA lesions from the genome, and
protects cells against ultraviolet (UV) irradiation. Transcription-coupled DNA repair begins …

[HTML][HTML] Cross-linking mass spectrometry (XL-MS): An emerging technology for interactomics and structural biology

C Yu, L Huang - Analytical chemistry, 2018 - ncbi.nlm.nih.gov
Protein-protein interactions are fundamental to the formation of intricate interaction networks
and the assembly of multisubunit protein complexes that represent the functional …