Francesco Pesce (@FrancPesce) profile picture

Francesco Pesce

@FrancPesce

PhD fellow at Linderstrøm-Lang Centre for Protein Science @uni_copenhagen. Working on protein dynamics and integrative methods in molecular simulations.

 Copenhagen, Denmark
Joined October 2019
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Photo by Francesco Pesce (@FrancPesce)Photo by Francesco Pesce (@FrancPesce)Photo by Francesco Pesce (@FrancPesce)Photo by Francesco Pesce (@FrancPesce)Photo by Francesco Pesce (@FrancPesce)Photo by Francesco Pesce (@FrancPesce)
We look forward to welcoming our #TWIN2PIPSA collaborators in Copenhagen 🇩🇰 next week for our first workshop If you're local, you are welcome to come and listen to the presentations by colleagues from @UCPH_Research. See programme for the talks below.
Image from Kresten Lindorff-Larsen (@LindorffLarsen)
Image from Kresten Lindorff-Larsen (@LindorffLarsen)
TWIN2PIPSA 🇪🇺 Protein Biophysics & Self-Assembly (@TWIN2PIPSA) profile pictureTWIN2PIPSA 🇪🇺 Protein Biophysics & Self-Assembly@TWIN2PIPSA6 Nov 2023
Countdown to #TWIN2PIPSA training school #1 'Integrating experimental and computational approaches in protein self-assembly' at @UCPH_Research🇩🇰with @LindorffLarsen and colleagues! #Twinning #REA #EU #Proteins #Biomedicine #Biotechnology
Image from TWIN2PIPSA 🇪🇺 Protein Biophysics & Self-Assembly (@TWIN2PIPSA)
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Very proud to see the last (and largest) project carried out during my PhD finally out. Thanks to all contibutors and in particular to @TanjaMittag and @StJudeStructBio for hosting me to run experiments on our designs.
Kresten Lindorff-Larsen (@LindorffLarsen) profile pictureKresten Lindorff-Larsen@LindorffLarsen24 Oct 2023
I'm excited to present @FrancPesce's work on developing, applying & testing a method to design intrinsically disordered proteins 🍝 While there has been much work on design methods for folded proteins, much less has been done for IDPs. 1/n doi.org/10.1101/2023.10.22.5…
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.@FrancPesce 's most recent paper is now published 📜 We studied the temperature-dependent 🌡️ conformational properties of the IDP Histatin 5 🍝 by combining enhanced sampling simulations with SAXS ⚡️, NMR 🧲 and CD 🤲 data doi.org/10.1021/acs.jpcb.3c0…
Image from Kresten Lindorff-Larsen (@LindorffLarsen)
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Do you enjoy interdisciplinary science and are looking for a postdoc position? We're looking for a PD with strong experience in MD simulations 🖥️ for our #DynaPLIX ERC Synergy project to integrate MD with with NMR 🧲 & time-resolved crystallography ⏱️⚡️ employment.ku.dk/faculty/?sh…
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I'm proud to introduce you to the IDRome 👋🍝 We performed simulations of 29,998 IDRs from the human proteome and analysed sequence-ensemble-function relationships. For a quick intro watch 🎞️👇 and then read: biorxiv.org/content/10.1101/…
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It was extremely nice to conclude this journey by discussing the results of my work with this fantastic committee. Thanks @HenrietteAutzen, @jkoefinger and @alexander_buell!
Kresten Lindorff-Larsen (@LindorffLarsen) profile pictureKresten Lindorff-Larsen@LindorffLarsen17 Mar 2023
Big congratulations to Dr. Francesco Pesce 🎉🥂🎓🇮🇹 @FrancPesce gave a wonderful talk about his work on integrative modelling of IDPs 🍝 ⚡️ 🧲 🖥️ and [secret stuff we’ll soon preprint] and defended his PhD in front of @jkoefinger, @alexander_buell & @HenrietteAutzen Well done!
Image from Kresten Lindorff-Larsen (@LindorffLarsen)
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Why science needs a protein emoji 🍝 🧶 🥩 🫘 Read about the relentless work by @andrewwhite01 and my own minor role that led to the submission and rejection of a protein emoji doi.org/10.1038/d41586-023-0…
An image showing the emoji that was submitted to and rejected by the Unicode Consortium

ALT An image showing the emoji that was submitted to and rejected by the Unicode Consortium

nature (@Nature) profile picturenature
@Nature6 Mar 2023
We have 🧬 🦠 🥼 🧫 – so where's the protein emoji? go.nature.com/3LiDHUL
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New preprint with @LindorffLarsen! We examine the temperature-dependent behaviour of Histatin5, a 24 residues-long disordered peptide that was previously characterized by experiments from @MarieSkepo and @BBKrage. biorxiv.org/content/10.1101/…
Combining experiments and simulations to examine the temperature-dependent behaviour of a disorde...

Combining experiments and simulations to examine the temperature-dependent behaviour of a disorde...

Intrinsically disordered proteins are a class of proteins that lack stable folded conformations and instead adopt a range of conformations that determine their biochemical functions. The temperatur...

biorxiv.org
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Thanks to our previous works about integrative modelling of conformational ensembles of IDPs against SAXS (doi.org/10.1016/j.bpj.2021.1…) and Rh (doi.org/10.1016/j.bpj.2022.1…), we have improved the agreement of the simulations with experiments and confirmed the link between PPII and Rh
Image from Francesco Pesce (@FrancPesce)
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Nonetheless, we could not achieve an optimal agreement with SAXS and Rh simultaneously, and we discuss the possible reasons and shortcomings that cause this.
Image from Francesco Pesce (@FrancPesce)
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Today marks the last day in our wonderful #BRAINSTRUC consortium on integrative structural biology. Funded by @lundbeckfonden in 2016 and involving @PoulNissen @gregers_rom @LiseArleth @aelangkilde and (in the last years) also @BBKrage, this has been a wonderful experience 🎉🙏
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PhD fellowship in structural bioinformatics available in the group in our #PRISM centre 🇩🇰 If you love proteins, know a bit of programming and like to do quantitative analyses based on protein structure and sequence, this might be for you. jobportal.ku.dk/phd/?show=15…
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"A cat mistook the HPC facility for a litter tray and my IDP simulation is only 100ns long" error
ErrantScience (@ErrantScience) profile pictureErrantScience@ErrantScience26 Sep 2022
Just hope it's your cat! 🐈‍⬛ #cartoon #academia #science
Image from ErrantScience (@ErrantScience)
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THEY SAY THAT THE PROTEIN FOLDING PROBLEM IS SOLVED, BUT WHAT THEY ARE NOT TELLING YOU IS THAT WE REALLY HAVE NO CLUE HOW MOST PROTEINS ACTUALLY FOLD
Image from Kresten Lindorff-Larsen (@LindorffLarsen)
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Thank you reviewers 🙏
Image from Kresten Lindorff-Larsen (@LindorffLarsen)
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Meet the newest version of CALVADOS, our coarse-grained model for simulating intrinsically disordered proteins. CALVADOS 2 has been fully reparameterized and shows interesting effects from tuning long-range non-ionic interactions. Work by @GiulioTesei. 1/n doi.org/10.1101/2022.07.09.4…
bioRxiv Biophysics (@biorxiv_biophys) profile picturebioRxiv Biophysics@biorxiv_biophys11 Jul 2022
Improved Predictions of Phase Behaviour of Intrinsically Disordered Proteins by Tuning the Interaction Range biorxiv.org/cgi/content/shor… #biorxiv_biophys
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New preprint with @LindorffLarsen and @BBKrage! Given the multitude and diversity of models to calculate the hydrodynamic radius of ensembles of IDPs, here we focus on identifying the most accurate one. Spoiler: it appears to be the Kirkwood-Riseman equation.
Kresten Lindorff-Larsen (@LindorffLarsen) profile pictureKresten Lindorff-Larsen@LindorffLarsen14 Jun 2022
How do you calculate the hydrodynamic radius from an ensemble of structures for an IDP? And how do you even figure out what the best approach is? Have a look at our latest preprint led by @FrancPesce and in collaboration with @BBKrage where we tackle this problem 🍝💻🧲⚡️. 1/n
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