Structural determinants for membrane binding of the EGFR juxtamembrane domain

Structural determinants for membrane binding of the EGFR juxtamembrane domain

The region containing residues I649 − L659 of the epidermal growth factor receptor (EGFR) juxtamembrane domain (JM) specifically interacts with PI(4,5)P2-or phosphatidylserine-containing membranes, suggesting that membrane binding may affect JM dimerization and, therefore, regulate EGFR kinase activation.


Overactivation of the epidermal growth factor receptor (EGFR) is critical for the development of multiple cancers. Previous studies have shown that the cell membrane is a key regulator of EGFR kinase activity through its interaction with the EGFR juxtamembrane domain (JM). However, the lipid recognition specificity of EGFR-JM and its interaction details remain unclear. Using lipid strip and liposome pulldown assays, we showed that EGFR-JM could specifically interact with PI(4,5)P2-or phosphatidylserine-containing membranes. We further characterized the JM–membrane interaction using NMR-titration-based chemical shift perturbation and paramagnetic relaxation enhancement analyses, and found that residues I649 − L659 comprised the membrane-binding site. Furthermore, the membrane-binding region contains the predicted dimerization motif of JM, 655LRRLL659, suggesting that membrane binding may affect JM dimerization and, therefore, regulate kinase activation.

Uncovering domain motif interactions using high‐throughput protein–protein interaction detection methods

Uncovering domain motif interactions using high-throughput protein–protein interaction detection methods

Protein–protein interactions (PPIs), often mediated by short linear motifs (SLiMs), shape cellular functions. This review provides an overview of SLiMs, and scrutinises current PPI detection techniques, highlighting their relevance to SLiM-mediated interactions and addressing challenges in detecting domain–motif interactions (DMIs). Case studies, like BioGrid database analysis, suggest high-throughput PPI methods as reliable sources for predicting DMIs, enriching our understanding of cellular dynamics.


Protein–protein interactions (PPIs) are often mediated by short linear motifs (SLiMs) in one protein and domain in another, known as domain–motif interactions (DMIs). During the past decade, SLiMs have been studied to find their role in cellular functions such as post-translational modifications, regulatory processes, protein scaffolding, cell cycle progression, cell adhesion, cell signalling and substrate selection for proteasomal degradation. This review provides a comprehensive overview of the current PPI detection techniques and resources, focusing on their relevance to capturing interactions mediated by SLiMs. We also address the challenges associated with capturing DMIs. Moreover, a case study analysing the BioGrid database as a source of DMI prediction revealed significant known DMI enrichment in different PPI detection methods. Overall, it can be said that current high-throughput PPI detection methods can be a reliable source for predicting DMIs.

The positive allosteric modulator BPAM344 and L‐glutamate introduce an active‐like structure of the ligand‐binding domain of GluK2

The positive allosteric modulator BPAM344 and L-glutamate introduce an active-like structure of the ligand-binding domain of GluK2

X-ray crystallography was used to determine an active-like dimer of the ligand-binding domain of GluK2, locating the positive allosteric modulator BPAM344 within the dimeric interface. Selected residues T535 and Q786 differing between GluK2 and GluA2 were investigated with calcium-sensitive fluorescence-based assays on transiently transfected cells. A three-fold increase in BPAM344 potency occurred with the double mutant T535S-Q786S in GluK2(Q).


Kainate receptors belong to the family of ionotropic glutamate receptors and contribute to the majority of fast excitatory neurotransmission. Consequently, they also play a role in brain diseases. Therefore, understanding how these receptors can be modulated is of importance. Our study provides a crystal structure of the dimeric ligand-binding domain of the kainate receptor GluK2 in complex with L-glutamate and the small-molecule positive allosteric modulator, BPAM344, in an active-like conformation. The role of Thr535 and Gln786 in modulating GluK2 by BPAM344 was investigated using a calcium-sensitive fluorescence-based assay on transiently transfected cells expressing GluK2 and mutants hereof. This study may aid in the design of compounds targeting kainate receptors, expanding their potential as targets for the treatment of brain diseases.

EU‐LIFE charter of independent life science research institutes

EU-LIFE charter of independent life science research institutes

In the EU-LIFE Charter of Independent Life Science Research Institutes, we are detailing 10 principles that are essential to enable institutes to foster excellence in research. The parameters to optimize and strive for range from enabling highest quality work to safeguarding independence and allowing engagement with society. Clearly communicating the core principles defines the roles and responsibility of institutes and allows their uncompromised commitment to excellence. This image was created with the assistance of DALL·E 2.


The diverse range of organizations contributing to the global research ecosystem is believed to enhance the overall quality and resilience of its output. Mid-sized autonomous research institutes, distinct from universities, play a crucial role in this landscape. They often lead the way in new research fields and experimental methods, including those in social and organizational domains, which are vital for driving innovation. The EU-LIFE alliance was established with the goal of fostering excellence by developing and disseminating best practices among European biomedical research institutes. As directors of the 15 EU-LIFE institutes, we have spent a decade comparing and refining our processes. Now, we are eager to share the insights we've gained. To this end, we have crafted this Charter, outlining 10 principles we deem essential for research institutes to flourish and achieve ground-breaking discoveries. These principles, detailed in the Charter, encompass excellence, independence, training, internationality and inclusivity, mission focus, technological advancement, administrative innovation, cooperation, societal impact, and public engagement. Our aim is to inspire the establishment of new institutes that adhere to these principles and to raise awareness about their significance. We are convinced that they should be viewed a crucial component of any national and international innovation strategies.

Plasmodium falciparum J‐dot localized J domain protein A8iJp modulates the chaperone activity of human HSPA8

Plasmodium falciparum J-dot localized J domain protein A8iJp modulates the chaperone activity of human HSPA8

A8iJp, a type-IV J domain protein of Plasmodium falciparum, gets truncated and trafficked into the host erythrocyte. The exported A8iJp gets localized to the lumen of the J-dots and can influence the chaperone activity of the human HSP70 chaperone HsHSPA8. Also, a subset of HsHSPA8 co-localizes with A8iJp within infected human erythrocytes. We suggest that A8iJp influences the functioning of HsHSPA8 during host erythrocyte remodeling.


Plasmodium falciparum renovates the host erythrocyte to survive during intraerythrocytic development. This renovation requires many parasite proteins to unfold and move outside the parasitophorous vacuolar membrane, and chaperone-regulated protein folding becomes essential for the exported proteins to function. We report on a type-IV J domain protein (JDP), PF3D7_1401100, which we found to be processed before export and trafficked inside the lumen of parasite-derived structures known as J-dots. We found this protein to have holdase activity, as well as stimulate the ATPase and aggregation suppression activity of the human HSP70 chaperone HsHSPA8; thus, we named it “HSPA8-interacting J protein” (A8iJp). Moreover, we found a subset of HsHSPA8 to co-localize with A8iJp inside the infected human erythrocyte. Our results suggest that A8iJp modulates HsHSPA8 chaperone activity and may play an important role in host erythrocyte renovation.

A two‐step mechanism for the binding of the HIV‐1 MPER epitope by the 10E8 antibody onto biosensor‐supported lipid bilayers

A two-step mechanism for the binding of the HIV-1 MPER epitope by the 10E8 antibody onto biosensor-supported lipid bilayers

MPER-targeting antibodies display nearly pan-neutralizing activity against HIV. Elucidating the mechanisms of epitope recognition by these antibodies is paramount for developing preventive vaccines and antibody-based treatments. Here, we report that binding of 10E8 to the MPER helix epitope presented in the membrane microenvironment occurs in two steps: (i) engagement with the solvent-exposed MPER portion; and (ii) accommodation of the membrane surface.


HIV-1 antibodies targeting the carboxy-terminal area of the membrane-proximal external region (ctMPER) are close to exerting viral pan-neutralization. Here, we reconstituted the ctMPER epitope as the N-terminal extremity of the Env glycoprotein transmembrane domain helix and immobilized it onto biosensor-supported lipid bilayers. We assessed the binding mechanism of anti-MPER antibody 10E8 through Surface Plasmon Resonance, and found, through equilibrium and kinetic binding analyses as a function of bilayer thickness, peptide length, and paratope mutations, that 10E8 engages first with the epitope peptide (encounter), limited by ctMPER helix accessibility at the membrane surface, and then inserts into the lipid bilayer assisted by favorable Fab-membrane interactions (docking). This mechanistic information may help in devising new strategies to develop more efficient MPER-targeting vaccines.

Drosophila germ granules are assembled from protein components through different modes of competing interactions with the multi‐domain Tudor protein

Drosophila germ granules are assembled from protein components through different modes of competing interactions with the multi-domain Tudor protein

Protein components of the germ granules, Aubergine (Aub) and Pyruvate Kinase (PyK), use different modes to associate with Tudor (Tud) protein, which contains 11 Tud domains. Aub binds to a single Tud domain and PyK requires two Tud domains. Aub and PyK compete for binding to Tud in vitro and form separate clusters within a granule in vivo, thereby minimizing the competition.


Membraneless organelles are RNA–protein assemblies which have been implicated in post-transcriptional control. Germ cells form membraneless organelles referred to as germ granules, which contain conserved proteins including Tudor domain-containing scaffold polypeptides and their partner proteins that interact with Tudor domains. Here, we show that in Drosophila, different germ granule proteins associate with the multi-domain Tudor protein using different numbers of Tudor domains. Furthermore, these proteins compete for interaction with Tudor in vitro and, surprisingly, partition to distinct and poorly overlapping clusters in germ granules in vivo. This partition results in minimization of the competition. Our data suggest that Tudor forms structurally different configurations with different partner proteins which dictate different biophysical properties and phase separation parameters within the same granule.

Identification and characterization of nuclear localization signals in the circumsporozoite protein of Plasmodium falciparum

Identification and characterization of nuclear localization signals in the circumsporozoite protein of Plasmodium falciparum

The circumsporozoite protein of Plasmodium falciparum (Pf-CSP) contains two nuclear localization signals (NLSs). The lysine and arginine residues in both NLSs are essential for Pf-CSP interaction with importin-α, aiding Pf-CSP's nuclear translocation. Both NLSs are vital for nuclear localization, with individual NLSs resulting in weaker localization. Pf-CSP also contains a distinct nuclear export signal motif that coordinates the protein nucleocytoplasmic shuttling mechanisms.


Secretory proteins of Plasmodium exhibit differential spatial and functional activity within the host cell nucleus. However, the nuclear localization signals (NLSs) for these proteins remain largely uncharacterized. In this study, we have identified and characterized two NLSs in the circumsporozoite protein of Plasmodium falciparum (Pf-CSP). Both NLSs in the Pf-CSP contain clusters of lysine and arginine residues essential for specific interactions with the conserved tryptophan and asparagine residues of importin-α, facilitating nuclear translocation of Pf-CSP. While the two NLSs of Pf-CSP function independently and are both crucial for nuclear localization, a single NLS of Pf-CSP leads to weak nuclear localization. These findings shed light on the mechanism of nuclear penetrability of secretory proteins of Plasmodium proteins.

Assessment of machine‐learning predictions for the Mediator complex subunit MED25 ACID domain interactions with transactivation domains

Assessment of machine-learning predictions for the Mediator complex subunit MED25 ACID domain interactions with transactivation domains

In this study, we report a systematic assessment of AlphaFold performance to predict 9 different human MED25 ACID domain–transactivation domain (TAD) interfaces and evaluate the accuracy of the models through comparison with published and new experimental data. We also reveal a new interaction surface unique to plants by predicting 3 different Arabidopsis thaliana MED25 complexes.


The human Mediator complex subunit MED25 binds transactivation domains (TADs) present in various cellular and viral proteins using two binding interfaces, named H1 and H2, which are found on opposite sides of its ACID domain. Here, we use and compare deep learning methods to characterize human MED25–TAD interfaces and assess the predicted models to published experimental data. For the H1 interface, AlphaFold produces predictions with high-reliability scores that agree well with experimental data, while the H2 interface predictions appear inconsistent, preventing reliable binding modes. Despite these limitations, we experimentally assess the validity of MED25 interface predictions with the viral transcriptional activators Lana-1 and IE62. AlphaFold predictions also suggest the existence of a unique hydrophobic pocket for the Arabidopsis MED25 ACID domain.