This position is part of a DFG-funded project on visual proteomics of Mycoplasma pneumoniae using advanced photocrosslinking mass spectrometry (crosslinking MS). The project aims to map protein-protein interactions in situ, interpret these interactions in the context of cellular structure, and explore their relevance for cellular mechanisms including those affected by antibiotics and other protein-targeting small molecules.

• Perform in-cell photocrosslinking using diazirine-based reagents to stabilise native protein interactions.
• Carry out large-scale sample preparation for proteome-wide crosslinking MS, including multidimensional fractionation (SEC, SCX, hSAX, RP).
• Assist with LC-MS/MS analyses using Orbitrap and Astral instrumentation in collaboration with MS specialists in the team.
• Contribute to analysis and interpretation of protein-protein interaction networks using xiSEARCH / xiFDR.
• Participate in integrative structural modelling (AlphaLink2) combining crosslinking MS with structural and bioinformatic data.
• Engage with research questions related to protein complexes, protein-drug interactions, and cellular mechanisms relevant to microbial physiology and antibiotic action.
• Work within an interdisciplinary environment at the interface of protein biochemistry, chemical biology, medicinal chemistry, analytical chemistry, and structural biology.

• Successfully completed scientific university degree (Master, Diplom, or equivalent) in Medicinal Chemistry, Pharmaceutical Sciences, Biochemistry, Biological Chemistry, Chemistry, or closely related discipline.
• Strong practical laboratory experience in at least one relevant area: protein biochemistry, molecular biology, analytical or physical chemistry, or chromatography.
• Solid understanding of instrumental analytical methods, ideally including chromatographic separation or spectrometric detection techniques.
• High motivation to learn and apply crosslinking MS, advanced LC-MS/MS workflows, and integrative structural biology approaches (is desirable).
• Strong interest in molecular mechanisms, protein structure, and interactions of proteins with small molecules or therapeutic agents, including antibiotics (is desirable).
• Ability to work independently with excellent organisational skills, accuracy, and scientific curiosity (is desirable).
• Very good communication and teamwork skills (is desirable).
• Excellent command of written and spoken English; German language skills are an advantage.
• Experience with X-ray crystallography or structural analysis tools (e.g., Chimera, PyMOL) (is desirable).
• Experience in peptide synthesis, protein sample preparation, enzymatic digestion, or peptide chromatography (is desirable).
• Background in medicinal chemistry, pharmacy, or related areas involving protein-targeted small molecules or mechanisms of drug action (is desirable).
• Familiarity with data analysis tools (e.g., Clustal Omega, sequence analysis, structural visualisation) (is desirable).
• Interest in interdisciplinary research bridging chemical biology, structural proteomics, and microbial systems (is desirable).

Please send your application with the reference number and the usual documents to Prof. Dr. Rappsilber by e-mail to sekretariat@bioanalytik.tu-berlin.de.

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To ensure equal opportunities between women and men, applications by women with the required qualifications are explicitly desired. Qualified individuals with disabilities will be favored. The TU Berlin values the diversity of its members and is committed to the goals of equal opportunities. Applications from people of all nationalities and with a migration background are very welcome.