LPDG

-- The London Proteomics Discussion Group --
Proteomics seminar series for the South East

Next Webinar LPDG-YPIC Mini Challenge
Proteomics seminar series for the South East
Discussion
Networking
Methods Challenge
---Registration is free---

About the LPDG

We are a free, local proteomics seminar series in the South East,
with a focus towards networking, discussion and supporting early career researchers.

The LPDG...

was founded to bring together the large community of proteomics scientists all working in and around London. We aim to provide a space for discussion, with a focus on methods and early career researchers (two fundamental building blocks of good research!), on all topics related to proteomics. The meetings comprise of research talks framed by a proteomics methods challenge, lunch, refreshments and pizza - they are free to attend thanks to sponsorship.


Meeting Dates:

Next Meeting

Sponsors

These seminars would not be possible without our amazing sponsors.
If you are interested in sponsoring an LPDG seminar,
please get in touch at sponsor@londonproteomics.co.uk

LPDG-YPIC Mini Challenge

The LPDG have teamed up with YPIC to produce a proteomics-challenge with Prize money sponsored by Matrix Science. To find out more and view the current challenge,

click here!

Webinar Programme


Proteomics: The Role Of Structural Proteomics

06th August 2021 14:00 GMT

Dr Mark Skehel

Expanding the subunit complexity of HDX/MS experiments: Using cyclic IMS to investigate the conformations of bovine mitochondrial complex I

Mitochondrial complex I (NADH:ubiquinone oxidoreductase), the largest protein assembly of the respiratory chain has a total mass of approximately 970 kilodaltons and drives cellular energy production by transferring electrons from NADH to ubiquinone with a concomitant translocation of protons across the inner mitochondrial membrane. The complex is made up of 45 individual subunits, 14 core subunits that contain the proteins involved in catalysis (and are conserved across species from bacteria to humans) and 31 supernumerary subunits that are specific to mammals. During single-particle cryo-electron microscopy studies of the enzyme by the group of Judy Hirst (MRC-Mitochondrial Biology Unit), computational sorting of the particles identified different structural classes, which showed slight conformational changes. Biochemically these movements have been described as the 'active-to-de-active' enzyme transition. I will discus the application of cyclic IMS to hydrogen deuterium exchange studies of complex I in the so called ‘active’ and ‘de-active’ conformations. The increased ion mobility resolution and ms resolution of the cyclic has allowed us to separate overlapping peptides so increasing our peptic peptide coverage of individual subunits and enabling us to increase the subunit complexity of the systems studied by HDX/MS.

Publication

Dr Francis O'Reilly

Discovering the topology of protein complexes in situ using crosslinking-MS

Identifying the components and topologies of labile protein complexes in their native environments remains a major challenge in structural biology. Crosslinking mass spectrometry can identify residues that are nearby in space and is routinely used to study the structure of protein complexes in vitro. We have pushed this technology towards mapping the topologies of of protein complexes inside intact cells. I will show that the powerful combination of in cell cross-linking mass spectrometry and cryo-electron microscopy can expand our understanding of even ‘well-characterised’ protein complexes. We demonstrate this by describing the architecture of a novel complex between a bacterial RNA polymerase and ribosome bridged through NusA, an anti-termination factor ubiquitous in bacteria.

Event Speakers

Would you like to present at an LPDG meeting? Email: speaker@londonproteomics.co.uk
Research presentations from:

Mark Skehel
Mark Skehel
Mark Skehel The Francis Crick Institute
London

Having received a B.Sc (Hons) in Chemistry with Biochemistry from King’s College, London (1988), Mark took a position as Higher Scientific Officer in John E. Walker’s lab at the MRC LMB, Cambridge, applying protein sequencing techniques for subunit characterisation of bovine mitochondrial NADH:Ubiquinone Oxidoreductase. He was awarded a Ph.D. in 1994. In 1998 he joined SmithKline Beecham before returning to academic science in 2007, setting up a biological mass spectrometry lab at CRUK. In 2012 he returned to the LMB as Head of Biological MS and Proteomics before joining the Crick as Head of the Proteomics STP this year.

Dr Francis O'Reilly
Dr Francis O'Reilly
Dr Francis O'Reilly Berlin Institute of Technology
Berlin

Francis O'Reilly studied at the University of Edinburgh where he obtained a Master's by Research in Structural Biology. Following this, he completed his Ph.D. studies at the European Molecular Biology Laboratory (EMBL) in Heidelberg where he developed methods to structurally study protein complexes in cell lysates. Currently, he is a postdoctoral fellow at the Technical University Berlin in Prof. Juri Rappsilber’s lab where he is using proteomics and electron microscopy to study the structure of protein complexes inside cells.

Michael Hoopmann
Michael Hoopmann
Michael Hoopmann - Chair Institute for Systems Biology
Seattle

Dr. Hoopmann’s research is focused on proteomics technology and methods development, having been trained in both instrumentation and software data analysis, with particular focus on high-resolution mass spectrometry. His current interests are in the development of advanced algorithms for discovery-based proteomics. He is the developer of the Kojak algorithm, a versatile, open-source software application for the discovery of protein-protein interactions through shotgun-based mass spectrometry. Dr. Hoopmann is also a contributor to the Trans-Proteomic Pipeline suite of software solutions for mass spectrometry data analysis.

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FAQ

Here is a list of answers to frequently asked questions for speakers, delegates and sponsors

If you still have unanswered questions after reading this page, wish to present a talk, suggest a venue or sponsor a meeting, please contact us.

Organising Committee

The organising committee is made up of early and "not-so-early" career scientists
from academia and industry.
If you are interested in joining the committee, please get in touch.

Dr Harvey Johnston
Dr Harvey Johnston Chairperson, Founder

After my PhD in blood plasma cancer proteomics I moved to the Cancer Proteomics Group at UCL. I founded the LPDG as a focus group for the SE. I am currently at the Babraham Institute investigating protein degradation pathways using proteomics.

Dr Harry Whitwell
Dr Harry Whitwell Communications Officer

I am a post doc at ICL, developing mass spectrometry and data analysis methodology for the study of protein PTMs, in particular methylation. My research is multidisciplinary, using chemistry, bioinformatics and biology. For more info, click here.

Dr Lukas Krasny
Dr Lukas Krasny Secretary

I am a post-doc at the ICR in Paul Huang’s group. My research interest is in extracellular matrix remodelling during cancer progression. From an analytical point of view, I am interested in protein quantification by DIA mass spectrometry.

Dr Roberto Buccafusca
Dr Roberto Buccafusca Treasurer

I manage an MS lab at QMUL. I graduated from Drexel University (USA) in Biomedical Science, completing my PhD work at Harvard University. After a long stint in the private sector, I re-joined academia here in the UK researching lipidomics and proteomics.

Danai Kati
Danai Kati
Danai Kati Committee Member

Danai studied biology and biomedical sciences in Greece. She has worked in numerous labs in England, Singapore, the Netherlands and Greece. Now she is focusing on her PhD at UCL in Primary Biliary Cholangitis analyzing human samples using Mass spectrometry.

Suniya Khatun
Suniya Khatun Committee member

I am a PhD student at UCL on the CellX project in the Thalassinos Lab studying competition in cellular populations using mass spectrometry-based proteomics.

Dr Daniel Conole
Dr Daniel Conole Committee member

Daniel is a post-doc in the lab of Prof. Ed Tate at Imperial College London. His research interests lie in the use of chemical proteomics for better understanding of drug targets, protein function, and post-translational modification dynamics.

Tom Ruane
Tom Ruane Committee member

Tom works for SCIEX in the London region helping customers with MS and 'OMICS applications. He gained an interest in MS from working with Prof Roy Goodacre, Manchester Institute of Biotech. applying -omics and chemometric approaches for rapid food authenticity determination.

Joanna Kirkpatrick
Dr Joanna Kirkpatrick
Dr Joanna Kirkpatrick Committee member

Joanna Kirkpatrick
Crick Insitute

London and the South East
United Kindgom

Please email with any questions.
Particularly welcome are venue suggestions,
speaker suggestions or if you are thinking of sponsoring a meeting.

This seminar series is run by volunteers from academia and industry. We will try to reply to your email as quickly as possible, but please allow at least 5 days.