Just a quick post to report a truly amazing paper published on Science just few days ago. The protein production line in cells involves a quality-control system, associated to the ER, dedicated to the elimination of misfolded proteins, and defined as ER-associated protein degradation (ERAD). The ER holds a specific subdomain in the proximity of the nucleus, the … Continue reading Science, a new quality-control pathway in the nuclear inner membrane.
My thesis is mostly focused on proteins, and be sure that I got really familiar with Uniprot. Uniprot comes out with a strong user interface that ease any approach. Biochemists can easily find what they need as a bioinformatician can set up his scripts to obtain information directly from the database. In fact, Uniprot has … Continue reading Dealing with Uniprot- Python programming interface.
The project I want to discuss today is probably the best thing that came out from my actual lab in the latest years (Bioinformatics Lab at Biochemistry Department of Sapienza University of Rome). Carried on by Emanuele Bramucci for his Master thesis, PyMOD is a plugin for the famous molecular visualization system PyMol and it … Continue reading PyMOD, a PyMol plugin for embedding multiple alignments in homology modelling
One of the biggest challenges in molecular evolution studies is to gain informations about the evolution of protein tertiary structures. When we try to determine the evolutionary origins of proteins, we basically consider the structure similarities between contemporary proteins, since we don't generally have enough paleo- materials to analyze. Therefore, we can only abstract a … Continue reading Four billion years old protein 3D structure determined by an Euro- American team. Showing the potential of evolutionary research.